-- dump date 20111121_014014 -- class Genbank::misc_feature -- table misc_feature_note -- id note 994484000001 hypothetical protein; Validated; Region: PRK06672 994484000002 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...; Region: AAA; cd00009 994484000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484000004 Walker A motif; other site 994484000005 ATP binding site [chemical binding]; other site 994484000006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000007 Walker B motif; other site 994484000008 arginine finger; other site 994484000009 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 994484000010 DnaA box-binding interface [nucleotide binding]; other site 994484000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 994484000012 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...; Region: beta_clamp; cd00140 994484000013 putative DNA binding surface [nucleotide binding]; other site 994484000014 dimer interface [polypeptide binding]; other site 994484000015 beta-clamp/clamp loader binding surface; other site 994484000016 beta-clamp/translesion DNA polymerase binding surface; other site 994484000017 recombination protein F; Reviewed; Region: recF; PRK00064 994484000018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000019 Walker A/P-loop; other site 994484000020 ATP binding site [chemical binding]; other site 994484000021 Q-loop/lid; other site 994484000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000023 ABC transporter signature motif; other site 994484000024 Walker B; other site 994484000025 D-loop; other site 994484000026 H-loop/switch region; other site 994484000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 994484000028 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 994484000029 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 994484000030 anchoring element; other site 994484000031 dimer interface [polypeptide binding]; other site 994484000032 ATP binding site [chemical binding]; other site 994484000033 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 994484000034 active site 994484000035 putative metal-binding site [ion binding]; other site 994484000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 994484000037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 994484000038 Integrase core domain; Region: rve; cl01316 994484000039 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484000040 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484000041 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 994484000042 active site 994484000043 phosphorylation site [posttranslational modification] 994484000044 intermolecular recognition site; other site 994484000045 dimerization interface [polypeptide binding]; other site 994484000046 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...; Region: trans_reg_C; cd00383 994484000047 DNA binding site [nucleotide binding] 994484000048 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484000049 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 trans-...; Region: HisKA; cd00082 994484000050 dimer interface [polypeptide binding]; other site 994484000051 phosphorylation site [posttranslational modification] 994484000052 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 994484000053 ATP binding site [chemical binding]; other site 994484000054 Mg2+ binding site [ion binding]; other site 994484000055 G-X-G motif; other site 994484000056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484000057 putative acyl-acceptor binding pocket; other site 994484000058 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 994484000059 active site 994484000060 motif I; other site 994484000061 motif II; other site 994484000062 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 994484000063 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 994484000064 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 994484000065 dimer interface [polypeptide binding]; other site 994484000066 motif 1; other site 994484000067 active site 994484000068 motif 2; other site 994484000069 motif 3; other site 994484000070 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 994484000071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484000072 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 994484000073 putative acyl-acceptor binding pocket; other site 994484000074 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484000075 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484000076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484000077 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484000078 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 994484000079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484000080 classical (c) SDRs; Region: SDR_c; cd05233 994484000081 NAD(P) binding site [chemical binding]; other site 994484000082 active site 994484000083 OsmC-like protein; Region: OsmC; cl00767 994484000084 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 994484000085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000086 metal binding site [ion binding]; metal-binding site 994484000087 active site 994484000088 I-site; other site 994484000089 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 994484000090 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484000091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000092 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 994484000093 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 994484000094 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 994484000095 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 994484000096 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 994484000097 motif II; other site 994484000098 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 994484000099 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484000100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000101 dimer interface [polypeptide binding]; other site 994484000102 conserved gate region; other site 994484000103 putative PBP binding loops; other site 994484000104 ABC-ATPase subunit interface; other site 994484000105 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 994484000106 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000107 Walker A/P-loop; other site 994484000108 ATP binding site [chemical binding]; other site 994484000109 Q-loop/lid; other site 994484000110 ABC transporter signature motif; other site 994484000111 Walker B; other site 994484000112 D-loop; other site 994484000113 H-loop/switch region; other site 994484000114 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 994484000115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000116 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 994484000117 dimerization interface [polypeptide binding]; other site 994484000118 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484000119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000120 dimer interface [polypeptide binding]; other site 994484000121 conserved gate region; other site 994484000122 ABC-ATPase subunit interface; other site 994484000123 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 994484000124 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; Region: ABC_MetN_methionine_transporter; cd03258 994484000125 Walker A/P-loop; other site 994484000126 ATP binding site [chemical binding]; other site 994484000127 Q-loop/lid; other site 994484000128 ABC transporter signature motif; other site 994484000129 Walker B; other site 994484000130 D-loop; other site 994484000131 H-loop/switch region; other site 994484000132 NIL domain; Region: NIL; cl09633 994484000133 hydroperoxidase II; Provisional; Region: katE; PRK11249 994484000134 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 994484000135 tetramer interface [polypeptide binding]; other site 994484000136 heme binding pocket [chemical binding]; other site 994484000137 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 994484000138 domain interactions; other site 994484000139 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 994484000140 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...; Region: TM_ABC_iron-siderophores_like; cl00462 994484000141 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 994484000142 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 iron-...; Region: ABC_Metallic_Cations; cd03235 994484000143 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 994484000144 metal binding site 2 [ion binding]; metal-binding site 994484000145 putative DNA binding helix; other site 994484000146 metal binding site 1 [ion binding]; metal-binding site 994484000147 dimer interface [polypeptide binding]; other site 994484000148 structural Zn2+ binding site [ion binding]; other site 994484000149 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 994484000150 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 994484000151 metal binding site [ion binding]; metal-binding site 994484000152 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 994484000153 Phosphotransferase enzyme family; Region: APH; pfam01636 994484000154 putative active site [active] 994484000155 putative substrate binding site [chemical binding]; other site 994484000156 ATP binding site [chemical binding]; other site 994484000157 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 994484000158 DNA polymerase I; Provisional; Region: PRK05755 994484000159 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 994484000160 active site 994484000161 metal binding site 1 [ion binding]; metal-binding site 994484000162 putative 5' ssDNA interaction site; other site 994484000163 metal binding site 3; metal-binding site 994484000164 metal binding site 2 [ion binding]; metal-binding site 994484000165 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 994484000166 putative DNA binding site [nucleotide binding]; other site 994484000167 putative metal binding site [ion binding]; other site 994484000168 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 994484000169 active site 994484000170 catalytic site [active] 994484000171 substrate binding site [chemical binding]; other site 994484000172 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 994484000173 active site 994484000174 DNA binding site [nucleotide binding] 994484000175 catalytic site [active] 994484000176 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 994484000177 G1 box; other site 994484000178 GTP/Mg2+ binding site [chemical binding]; other site 994484000179 Switch I region; other site 994484000180 G2 box; other site 994484000181 G3 box; other site 994484000182 Switch II region; other site 994484000183 G4 box; other site 994484000184 G5 box; other site 994484000185 Cytochrome c; Region: Cytochrom_C; cl11414 994484000186 Cytochrome c; Region: Cytochrom_C; cl11414 994484000187 Cytochrome c; Region: Cytochrom_C; cl11414 994484000188 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 994484000189 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 994484000190 catalytic residues [active] 994484000191 hinge region; other site 994484000192 alpha helical domain; other site 994484000193 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 994484000194 putative catalytic site [active] 994484000195 putative metal binding site [ion binding]; other site 994484000196 putative phosphate binding site [ion binding]; other site 994484000197 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 994484000198 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000199 metal binding site [ion binding]; metal-binding site 994484000200 active site 994484000201 I-site; other site 994484000202 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 994484000203 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 994484000204 amidase catalytic site [active] 994484000205 Zn binding residues [ion binding]; other site 994484000206 substrate binding site [chemical binding]; other site 994484000207 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 994484000208 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 994484000209 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 994484000210 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 994484000211 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 994484000212 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484000213 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 994484000214 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 trans-...; Region: HisKA; cd00082 994484000215 dimer interface [polypeptide binding]; other site 994484000216 phosphorylation site [posttranslational modification] 994484000217 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 994484000218 ATP binding site [chemical binding]; other site 994484000219 Mg2+ binding site [ion binding]; other site 994484000220 G-X-G motif; other site 994484000221 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484000222 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 994484000223 active site 994484000224 phosphorylation site [posttranslational modification] 994484000225 intermolecular recognition site; other site 994484000226 dimerization interface [polypeptide binding]; other site 994484000227 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...; Region: AAA; cd00009 994484000228 Walker A motif; other site 994484000229 ATP binding site [chemical binding]; other site 994484000230 Walker B motif; other site 994484000231 arginine finger; other site 994484000232 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484000233 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 994484000234 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484000235 Nucleoside recognition; Region: Gate; cl00486 994484000236 Nucleoside recognition; Region: Gate; cl00486 994484000237 Protein of unknown function (DUF330); Region: DUF330; cl01135 994484000238 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 994484000239 mce related protein; Region: MCE; pfam02470 994484000240 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 994484000241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000242 Walker A/P-loop; other site 994484000243 ATP binding site [chemical binding]; other site 994484000244 Q-loop/lid; other site 994484000245 ABC transporter signature motif; other site 994484000246 Walker B; other site 994484000247 D-loop; other site 994484000248 H-loop/switch region; other site 994484000249 Domain of unknown function DUF140; Region: DUF140; cl00510 994484000250 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 994484000251 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 994484000252 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 994484000253 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484000254 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 994484000255 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 994484000256 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 994484000257 PhoU domain; Region: PhoU; pfam01895 994484000258 Integral membrane protein TerC family; Region: TerC; cl10468 994484000259 Citrate transporter; Region: CitMHS; pfam03600 994484000260 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; cl09110 994484000261 transmembrane helices; other site 994484000262 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 994484000263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000264 NAD(P) binding site [chemical binding]; other site 994484000265 active site 994484000266 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 994484000267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000268 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 994484000269 dimerization interface [polypeptide binding]; other site 994484000270 substrate binding pocket [chemical binding]; other site 994484000271 Sulfatase; Region: Sulfatase; cl10460 994484000272 choline-sulfatase; Region: chol_sulfatase; TIGR03417 994484000273 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 994484000274 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484000275 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484000276 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 994484000277 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484000278 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484000279 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 994484000280 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 994484000281 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 994484000282 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484000283 shikimate binding site; other site 994484000284 NAD(P) binding site [chemical binding]; other site 994484000285 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 994484000286 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 994484000287 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 994484000288 NADP binding site [chemical binding]; other site 994484000289 dimer interface [polypeptide binding]; other site 994484000290 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 994484000291 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 994484000292 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 994484000293 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 994484000294 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(...; Region: Pep_deformylase; cd00487 994484000295 active site 994484000296 catalytic residues [active] 994484000297 metal binding site [ion binding]; metal-binding site 994484000298 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 994484000299 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 994484000300 putative active site [active] 994484000301 substrate binding site [chemical binding]; other site 994484000302 putative cosubstrate binding site; other site 994484000303 catalytic site [active] 994484000304 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 994484000305 substrate binding site [chemical binding]; other site 994484000306 16S rRNA methyltransferase B; Provisional; Region: PRK10901 994484000307 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 rRNA-...; Region: NusB_Sun; cl00223 994484000308 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; cl12011 994484000309 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 994484000310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000311 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; cl09110 994484000312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000313 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; cl09110 994484000314 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 994484000315 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000316 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000317 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000318 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000319 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484000320 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 994484000321 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 994484000322 TPR motif; other site 994484000323 binding surface 994484000324 radical SAM pair-associated protein; Region: chp_LLNDYxLRE; TIGR03976 994484000325 His-Xaa-Ser repeat-associated upstream radical SAM protein; Region: rSAM_paired_1; TIGR03978 994484000326 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 994484000327 FeS/SAM binding site; other site 994484000328 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 994484000329 His-Xaa-Ser repeat-associated downstream radical SAM protein; Region: rSAM_paired_2; TIGR03977 994484000330 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 994484000331 FeS/SAM binding site; other site 994484000332 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 994484000333 Cu(I) binding site [ion binding]; other site 994484000334 UbiA prenyltransferase family; Region: UbiA; cl00337 994484000335 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 994484000336 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 994484000337 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 994484000338 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 994484000339 Subunit III/VIIa interface [polypeptide binding]; other site 994484000340 Phospholipid binding site [chemical binding]; other site 994484000341 Subunit I/III interface [polypeptide binding]; other site 994484000342 Subunit III/VIb interface [polypeptide binding]; other site 994484000343 Subunit III/VIa interface; other site 994484000344 Subunit III/Vb interface [polypeptide binding]; other site 994484000345 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 994484000346 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 994484000347 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 994484000348 Subunit I/III interface [polypeptide binding]; other site 994484000349 D-pathway; other site 994484000350 Subunit I/VIIc interface [polypeptide binding]; other site 994484000351 Subunit I/IV interface [polypeptide binding]; other site 994484000352 Subunit I/II interface [polypeptide binding]; other site 994484000353 Low-spin heme (heme a) binding site [chemical binding]; other site 994484000354 Subunit I/VIIa interface [polypeptide binding]; other site 994484000355 Subunit I/VIa interface [polypeptide binding]; other site 994484000356 Dimer interface; other site 994484000357 Putative water exit pathway; other site 994484000358 Binuclear center (heme a3/CuB) [ion binding]; other site 994484000359 K-pathway; other site 994484000360 Subunit I/Vb interface [polypeptide binding]; other site 994484000361 Putative proton exit pathway; other site 994484000362 Subunit I/VIb interface; other site 994484000363 Subunit I/VIc interface [polypeptide binding]; other site 994484000364 Electron transfer pathway; other site 994484000365 Subunit I/VIIIb interface [polypeptide binding]; other site 994484000366 Subunit I/VIIb interface [polypeptide binding]; other site 994484000367 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 994484000368 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 994484000369 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484000370 Cytochrome c [Energy production and conversion]; Region: COG3258 994484000371 Cytochrome c; Region: Cytochrom_C; cl11414 994484000372 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484000373 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 994484000374 active site clefts [active] 994484000375 zinc binding site [ion binding]; other site 994484000376 dimer interface [polypeptide binding]; other site 994484000377 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 994484000378 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; cl15259 994484000379 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 994484000380 active site 994484000381 catalytic residues [active] 994484000382 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 994484000383 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 994484000384 Zn binding site [ion binding]; other site 994484000385 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 994484000386 oligopeptidase A; Provisional; Region: PRK10911 994484000387 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 994484000388 active site 994484000389 Zn binding site [ion binding]; other site 994484000390 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 994484000391 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 994484000392 trimer interface [polypeptide binding]; other site 994484000393 putative metal binding site [ion binding]; other site 994484000394 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484000395 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; cl11391 994484000396 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 994484000397 motif II; other site 994484000398 Transposase IS200 like; Region: Y1_Tnp; cl00848 994484000399 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484000400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484000401 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 994484000402 active site/substrate binding site [active] 994484000403 tetramer interface [polypeptide binding]; other site 994484000404 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 994484000405 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 994484000406 Aspartase; Region: Aspartase; cd01357 994484000407 active sites [active] 994484000408 tetramer interface [polypeptide binding]; other site 994484000409 cell density-dependent motility repressor; Provisional; Region: PRK10082 994484000410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000411 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 994484000412 dimerization interface [polypeptide binding]; other site 994484000413 AIR carboxylase; Region: AIRC; cl00310 994484000414 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 994484000415 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484000416 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 994484000417 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 994484000418 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 994484000419 active site 994484000420 phosphate binding residues; other site 994484000421 catalytic residues [active] 994484000422 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...; Region: BFIT_BACH; cd03442 994484000423 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 994484000424 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484000425 putative substrate translocation pore; other site 994484000426 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 994484000427 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 994484000428 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484000429 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 994484000430 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000431 dimer interface [polypeptide binding]; other site 994484000432 conserved gate region; other site 994484000433 putative PBP binding loops; other site 994484000434 ABC-ATPase subunit interface; other site 994484000435 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 994484000436 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 994484000437 Walker A/P-loop; other site 994484000438 ATP binding site [chemical binding]; other site 994484000439 Q-loop/lid; other site 994484000440 ABC transporter signature motif; other site 994484000441 Walker B; other site 994484000442 D-loop; other site 994484000443 H-loop/switch region; other site 994484000444 transcriptional regulator PhoU; Provisional; Region: PRK11115 994484000445 PhoU domain; Region: PhoU; pfam01895 994484000446 PhoU domain; Region: PhoU; pfam01895 994484000447 Response regulator receiver domain; Region: Response_reg; pfam00072 994484000448 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 994484000449 active site 994484000450 phosphorylation site [posttranslational modification] 994484000451 intermolecular recognition site; other site 994484000452 dimerization interface [polypeptide binding]; other site 994484000453 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484000454 Domain of unknown function DUF21; Region: DUF21; pfam01595 994484000455 gliding motility-associated protein GldE; Region: GldE; TIGR03520 994484000456 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 994484000457 Transporter associated domain; Region: CorC_HlyC; cl08393 994484000458 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 994484000459 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484000460 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 994484000461 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 trans-...; Region: HisKA; cd00082 994484000462 dimer interface [polypeptide binding]; other site 994484000463 phosphorylation site [posttranslational modification] 994484000464 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 994484000465 ATP binding site [chemical binding]; other site 994484000466 Mg2+ binding site [ion binding]; other site 994484000467 G-X-G motif; other site 994484000468 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 994484000469 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 994484000470 active site 994484000471 phosphorylation site [posttranslational modification] 994484000472 intermolecular recognition site; other site 994484000473 dimerization interface [polypeptide binding]; other site 994484000474 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...; Region: trans_reg_C; cd00383 994484000475 DNA binding site [nucleotide binding] 994484000476 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 994484000477 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 994484000478 UbiA prenyltransferase family; Region: UbiA; cl00337 994484000479 UTRA domain; Region: UTRA; cl01230 994484000480 Rubredoxin [Energy production and conversion]; Region: COG1773 994484000481 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...; Region: rubredoxin; cd00730 994484000482 iron binding site [ion binding]; other site 994484000483 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 994484000484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000486 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 higher-...; Region: HU_IHF; cd00591 994484000487 IHF dimer interface [polypeptide binding]; other site 994484000488 IHF - DNA interface [nucleotide binding]; other site 994484000489 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 994484000490 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 994484000491 OsmC-like protein; Region: OsmC; cl00767 994484000492 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 994484000493 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 994484000494 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 994484000495 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 994484000496 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 994484000497 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484000498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000499 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 994484000500 dimerization interface [polypeptide binding]; other site 994484000501 tryptophan synthase, beta chain; Region: PLN02618 994484000502 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 994484000503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484000504 catalytic residue [active] 994484000505 tryptophan synthase; Region: PLN02591 994484000506 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...; Region: Tryptophan_synthase_alpha; cd04724 994484000507 substrate binding site [chemical binding]; other site 994484000508 active site 994484000509 catalytic residues [active] 994484000510 heterodimer interface [polypeptide binding]; other site 994484000511 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 994484000512 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 994484000513 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 994484000514 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 994484000515 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 994484000516 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 994484000517 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 994484000518 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 994484000519 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 994484000520 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 994484000521 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 994484000522 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484000523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000524 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 994484000525 dimerization interface [polypeptide binding]; other site 994484000526 substrate binding pocket [chemical binding]; other site 994484000527 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 994484000528 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484000529 FAD binding site [chemical binding]; other site 994484000530 substrate binding pocket [chemical binding]; other site 994484000531 catalytic base [active] 994484000532 CoA-transferase family III; Region: CoA_transf_3; cl00778 994484000533 hypothetical protein; Provisional; Region: PRK11367 994484000534 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 994484000535 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 994484000536 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 994484000537 binding surface 994484000538 TPR motif; other site 994484000539 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 994484000540 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484000541 N-glycosyltransferase; Provisional; Region: PRK11204 994484000542 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 994484000543 DXD motif; other site 994484000544 hemin storage system protein; Provisional; Region: hmsS; cl14676 994484000545 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 994484000546 [2Fe-2S] cluster binding site [ion binding]; other site 994484000547 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484000548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000549 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 994484000550 substrate binding site [chemical binding]; other site 994484000551 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484000552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484000553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000554 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 994484000555 putative effector binding pocket; other site 994484000556 dimerization interface [polypeptide binding]; other site 994484000557 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 994484000558 Enoylreductase; Region: PKS_ER; smart00829 994484000559 putative NAD(P) binding site [chemical binding]; other site 994484000560 von Willebrand factor; Region: vWF_A; pfam12450 994484000561 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 994484000562 VWA subgroup: 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-...; Region: vWA_subgroup; cd01465 994484000563 metal ion-dependent adhesion site (MIDAS); other site 994484000564 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 994484000565 RNA polymerase sigma factor; Provisional; Region: PRK12513 994484000566 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484000567 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...; Region: Sigma70_r4; cd06171 994484000568 DNA binding residues [nucleotide binding] 994484000569 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484000570 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484000571 tetramerization interface [polypeptide binding]; other site 994484000572 NAD(P) binding site [chemical binding]; other site 994484000573 catalytic residues [active] 994484000574 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 994484000575 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 994484000576 inhibitor-cofactor binding pocket; inhibition site 994484000577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484000578 catalytic residue [active] 994484000579 Response regulator receiver domain; Region: Response_reg; pfam00072 994484000580 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 994484000581 active site 994484000582 phosphorylation site [posttranslational modification] 994484000583 intermolecular recognition site; other site 994484000584 dimerization interface [polypeptide binding]; other site 994484000585 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484000586 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484000587 PAS fold; Region: PAS_3; pfam08447 994484000588 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484000589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000590 metal binding site [ion binding]; metal-binding site 994484000591 active site 994484000592 I-site; other site 994484000593 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 994484000594 Di-iron ligands [ion binding]; other site 994484000595 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 994484000596 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 994484000597 PAS domain S-box; Region: sensory_box; TIGR00229 994484000598 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 994484000599 putative active site [active] 994484000600 heme pocket [chemical binding]; other site 994484000601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000602 metal binding site [ion binding]; metal-binding site 994484000603 active site 994484000604 I-site; other site 994484000605 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 994484000606 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 994484000607 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 994484000608 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484000609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000610 dimer interface [polypeptide binding]; other site 994484000611 conserved gate region; other site 994484000612 putative PBP binding loops; other site 994484000613 ABC-ATPase subunit interface; other site 994484000614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000615 dimer interface [polypeptide binding]; other site 994484000616 conserved gate region; other site 994484000617 putative PBP binding loops; other site 994484000618 ABC-ATPase subunit interface; other site 994484000619 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 994484000620 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 solute-...; Region: ABC_CysA_sulfate_importer; cd03296 994484000621 Walker A/P-loop; other site 994484000622 ATP binding site [chemical binding]; other site 994484000623 Q-loop/lid; other site 994484000624 ABC transporter signature motif; other site 994484000625 Walker B; other site 994484000626 D-loop; other site 994484000627 H-loop/switch region; other site 994484000628 TOBE-like domain; Region: TOBE_3; pfam12857 994484000629 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484000630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000631 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484000632 Protein of unknown function (DUF962); Region: DUF962; cl01879 994484000633 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484000634 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 994484000635 ligand binding site [chemical binding]; other site 994484000636 flexible hinge region; other site 994484000637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000638 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484000639 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484000640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484000641 Fatty acid desaturase; Region: FA_desaturase; pfam00487 994484000642 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 994484000643 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 994484000644 N-terminal plug; other site 994484000645 ligand-binding site [chemical binding]; other site 994484000646 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484000647 FecR protein; Region: FecR; pfam04773 994484000648 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 994484000649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484000650 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484000651 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484000652 Cache domain; Region: Cache_1; pfam02743 994484000653 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484000654 dimerization interface [polypeptide binding]; other site 994484000655 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484000656 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484000657 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 994484000658 putative hydrophobic ligand binding site [chemical binding]; other site 994484000659 protein interface [polypeptide binding]; other site 994484000660 gate; other site 994484000661 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484000662 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484000663 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484000664 thioester reductase domain; Region: Thioester-redct; TIGR01746 994484000665 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 994484000666 putative NAD(P) binding site [chemical binding]; other site 994484000667 active site 994484000668 putative substrate binding site [chemical binding]; other site 994484000669 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 994484000670 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 994484000671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484000672 DNA-binding site [nucleotide binding]; DNA binding site 994484000673 FCD domain; Region: FCD; cl11656 994484000674 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 994484000675 biofilm formation regulator HmsP; Provisional; Region: PRK11829 994484000676 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484000677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000678 metal binding site [ion binding]; metal-binding site 994484000679 active site 994484000680 I-site; other site 994484000681 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 994484000682 Equine herpesvirus glycoprotein gp2; Region: Herpes_gp2; pfam05955 994484000683 Calx-beta domain; Region: Calx-beta; cl02522 994484000684 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 994484000685 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484000686 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 994484000687 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484000688 Outer membrane efflux protein; Region: OEP; pfam02321 994484000689 Outer membrane efflux protein; Region: OEP; pfam02321 994484000690 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 994484000691 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 994484000692 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484000693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000694 Walker A/P-loop; other site 994484000695 ATP binding site [chemical binding]; other site 994484000696 Q-loop/lid; other site 994484000697 ABC transporter signature motif; other site 994484000698 Walker B; other site 994484000699 D-loop; other site 994484000700 H-loop/switch region; other site 994484000701 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484000702 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 994484000703 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484000704 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 994484000705 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484000706 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 994484000707 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484000708 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 994484000709 Walker A/P-loop; other site 994484000710 ATP binding site [chemical binding]; other site 994484000711 Q-loop/lid; other site 994484000712 ABC transporter signature motif; other site 994484000713 Walker B; other site 994484000714 D-loop; other site 994484000715 H-loop/switch region; other site 994484000716 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484000717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000718 dimer interface [polypeptide binding]; other site 994484000719 conserved gate region; other site 994484000720 putative PBP binding loops; other site 994484000721 ABC-ATPase subunit interface; other site 994484000722 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 994484000723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000724 TIGR01777 family protein; Region: yfcH 994484000725 NAD(P) binding site [chemical binding]; other site 994484000726 active site 994484000727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484000728 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 994484000729 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000730 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 994484000731 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000732 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 994484000733 active site 994484000734 putative substrate binding region [chemical binding]; other site 994484000735 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000736 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 994484000737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484000738 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 994484000739 Phage Tail Collar Domain; Region: Collar; pfam07484 994484000740 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 994484000741 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 994484000742 Outer membrane efflux protein; Region: OEP; pfam02321 994484000743 Outer membrane efflux protein; Region: OEP; pfam02321 994484000744 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl01426 994484000745 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 994484000746 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 994484000747 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 994484000748 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 994484000749 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...; Region: AAA; cd00009 994484000750 Walker A motif; other site 994484000751 ATP binding site [chemical binding]; other site 994484000752 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 994484000753 Walker B motif; other site 994484000754 arginine finger; other site 994484000755 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484000756 RHS Repeat; Region: RHS_repeat; cl11982 994484000757 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484000758 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484000759 Predicted ATPase [General function prediction only]; Region: COG4637 994484000760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484000761 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000762 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000763 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 994484000764 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484000765 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 994484000766 metal-binding site [ion binding] 994484000767 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484000768 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; cl11391 994484000769 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 994484000770 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 994484000771 DNA binding residues [nucleotide binding] 994484000772 dimer interface [polypeptide binding]; other site 994484000773 putative metal binding site [ion binding]; other site 994484000774 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 994484000775 dimerization interface [polypeptide binding]; other site 994484000776 active site 994484000777 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 994484000778 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484000779 Protein of unknown function (DUF833); Region: DUF833; cl01315 994484000780 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 994484000781 GAF domain; Region: GAF; cl00853 994484000782 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484000783 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 994484000784 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 994484000785 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...; Region: Ap4A_hydrolase_plant_like; cd03671 994484000786 putative active site [active] 994484000787 Ap4A binding site [chemical binding]; other site 994484000788 nudix motif; other site 994484000789 putative metal binding site [ion binding]; other site 994484000790 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484000791 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; cl11391 994484000792 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 994484000793 motif II; other site 994484000794 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 994484000795 threonine dehydratase; Reviewed; Region: PRK09224 994484000796 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 994484000797 tetramer interface [polypeptide binding]; other site 994484000798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484000799 catalytic residue [active] 994484000800 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 994484000801 putative Ile/Val binding site [chemical binding]; other site 994484000802 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 994484000803 putative Ile/Val binding site [chemical binding]; other site 994484000804 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 994484000805 tetramer (dimer of dimers) interface [polypeptide binding]; other site 994484000806 active site 994484000807 dimer interface [polypeptide binding]; other site 994484000808 SdiA-regulated; Region: SdiA-regulated; cd09971 994484000809 putative active site [active] 994484000810 SdiA-regulated; Region: SdiA-regulated; cd09971 994484000811 putative active site [active] 994484000812 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484000813 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 994484000814 FAD binding domain; Region: FAD_binding_4; pfam01565 994484000815 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 994484000816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000817 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 994484000818 L-serine binding site [chemical binding]; other site 994484000819 ACT domain interface; other site 994484000820 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484000821 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...; Region: PBPb; cd00134 994484000822 substrate binding pocket [chemical binding]; other site 994484000823 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 994484000824 S-adenosylmethionine binding site [chemical binding]; other site 994484000825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000826 dimer interface [polypeptide binding]; other site 994484000827 conserved gate region; other site 994484000828 ABC-ATPase subunit interface; other site 994484000829 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 994484000830 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; Region: ABC_MetN_methionine_transporter; cd03258 994484000831 Walker A/P-loop; other site 994484000832 ATP binding site [chemical binding]; other site 994484000833 Q-loop/lid; other site 994484000834 ABC transporter signature motif; other site 994484000835 Walker B; other site 994484000836 D-loop; other site 994484000837 H-loop/switch region; other site 994484000838 NIL domain; Region: NIL; cl09633 994484000839 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484000840 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 994484000841 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 994484000842 active site 994484000843 non-prolyl cis peptide bond; other site 994484000844 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484000845 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484000846 Flavin binding site [chemical binding]; other site 994484000847 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484000848 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484000849 Flavin binding site [chemical binding]; other site 994484000850 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 994484000851 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484000852 Walker A/P-loop; other site 994484000853 ATP binding site [chemical binding]; other site 994484000854 Q-loop/lid; other site 994484000855 ABC transporter signature motif; other site 994484000856 Walker B; other site 994484000857 D-loop; other site 994484000858 H-loop/switch region; other site 994484000859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000860 dimer interface [polypeptide binding]; other site 994484000861 conserved gate region; other site 994484000862 putative PBP binding loops; other site 994484000863 ABC-ATPase subunit interface; other site 994484000864 cystine transporter subunit; Provisional; Region: PRK11260 994484000865 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...; Region: PBPb; cd00134 994484000866 substrate binding pocket [chemical binding]; other site 994484000867 membrane-bound complex binding site; other site 994484000868 hinge residues; other site 994484000869 D-cysteine desulfhydrase; Validated; Region: PRK03910 994484000870 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 994484000871 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484000872 catalytic residue [active] 994484000873 choline transport protein BetT; Provisional; Region: PRK09928 994484000874 BCCT family transporter; Region: BCCT; cl00569 994484000875 short chain dehydrogenase; Provisional; Region: PRK12937 994484000876 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 994484000877 NADP binding site [chemical binding]; other site 994484000878 homodimer interface [polypeptide binding]; other site 994484000879 active site 994484000880 substrate binding site [chemical binding]; other site 994484000881 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484000882 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000883 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 994484000884 putative effector binding pocket; other site 994484000885 putative dimerization interface [polypeptide binding]; other site 994484000886 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484000887 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...; Region: Aldo_ket_red; cd06660 994484000888 active site 994484000889 catalytic tetrad [active] 994484000890 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484000891 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 994484000892 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484000893 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484000894 dimer interface [polypeptide binding]; other site 994484000895 conserved gate region; other site 994484000896 putative PBP binding loops; other site 994484000897 ABC-ATPase subunit interface; other site 994484000898 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 994484000899 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 994484000900 Walker A/P-loop; other site 994484000901 ATP binding site [chemical binding]; other site 994484000902 Q-loop/lid; other site 994484000903 ABC transporter signature motif; other site 994484000904 Walker B; other site 994484000905 D-loop; other site 994484000906 H-loop/switch region; other site 994484000907 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 994484000908 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...; Region: PBPb; cd00134 994484000909 substrate binding pocket [chemical binding]; other site 994484000910 membrane-bound complex binding site; other site 994484000911 hinge residues; other site 994484000912 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 994484000913 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 994484000914 CoenzymeA binding site [chemical binding]; other site 994484000915 subunit interaction site [polypeptide binding]; other site 994484000916 PHB binding site; other site 994484000917 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 994484000918 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 994484000919 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 994484000920 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...; Region: S1_Tex; cd05685 994484000921 RNA binding site [nucleotide binding]; other site 994484000922 osmolarity response regulator; Provisional; Region: ompR; PRK09468 994484000923 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 994484000924 active site 994484000925 phosphorylation site [posttranslational modification] 994484000926 intermolecular recognition site; other site 994484000927 dimerization interface [polypeptide binding]; other site 994484000928 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...; Region: trans_reg_C; cd00383 994484000929 DNA binding site [nucleotide binding] 994484000930 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 994484000931 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484000932 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 994484000933 ATP binding site [chemical binding]; other site 994484000934 Mg2+ binding site [ion binding]; other site 994484000935 G-X-G motif; other site 994484000936 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 994484000937 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484000938 Protein of unknown function (DUF785); Region: DUF785; cl01682 994484000939 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 994484000940 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 994484000941 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 994484000942 dimerization interface [polypeptide binding]; other site 994484000943 domain crossover interface; other site 994484000944 redox-dependent activation switch; other site 994484000945 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 994484000946 active site 994484000947 substrate-binding site [chemical binding]; other site 994484000948 metal-binding site [ion binding] 994484000949 ATP binding site [chemical binding]; other site 994484000950 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 994484000951 S-type Pyocin; Region: Pyocin_S; pfam06958 994484000952 Cytotoxic; Region: Cytotoxic; pfam09000 994484000953 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 994484000954 ATP binding site [chemical binding]; other site 994484000955 putative Mg++ binding site [ion binding]; other site 994484000956 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 994484000957 nucleotide binding region [chemical binding]; other site 994484000958 ATP-binding site [chemical binding]; other site 994484000959 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 994484000960 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484000961 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484000962 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484000963 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...; Region: 4HBT; cd00586 994484000964 active site 994484000965 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 994484000966 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 994484000967 putative molybdopterin cofactor binding site [chemical binding]; other site 994484000968 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: MopB_CT_ydeP; cd02787 994484000969 putative molybdopterin cofactor binding site; other site 994484000970 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 994484000971 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484000972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484000973 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 994484000974 dimerization interface [polypeptide binding]; other site 994484000975 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 994484000976 BON domain; Region: BON; cl02771 994484000977 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 994484000978 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484000979 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 994484000980 motif II; other site 994484000981 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...; Region: ADPRase_NUDT5; cd03424 994484000982 dimer interface [polypeptide binding]; other site 994484000983 ADP-ribose binding site [chemical binding]; other site 994484000984 active site 994484000985 nudix motif; other site 994484000986 metal binding site [ion binding]; metal-binding site 994484000987 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 994484000988 active site 994484000989 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 994484000990 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484000991 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 994484000992 active site 994484000993 phosphorylation site [posttranslational modification] 994484000994 intermolecular recognition site; other site 994484000995 dimerization interface [polypeptide binding]; other site 994484000996 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...; Region: AAA; cd00009 994484000997 Walker A motif; other site 994484000998 ATP binding site [chemical binding]; other site 994484000999 Walker B motif; other site 994484001000 arginine finger; other site 994484001001 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484001002 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 trans-...; Region: HisKA; cd00082 994484001003 dimer interface [polypeptide binding]; other site 994484001004 phosphorylation site [posttranslational modification] 994484001005 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 994484001006 ATP binding site [chemical binding]; other site 994484001007 G-X-G motif; other site 994484001008 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 994484001009 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 994484001010 NADP binding site [chemical binding]; other site 994484001011 active site 994484001012 putative substrate binding site [chemical binding]; other site 994484001013 Cupin domain; Region: Cupin_2; cl09118 994484001014 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 994484001015 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 994484001016 substrate binding site [chemical binding]; other site 994484001017 tetramer interface [polypeptide binding]; other site 994484001018 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 994484001019 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 994484001020 NAD binding site [chemical binding]; other site 994484001021 substrate binding site [chemical binding]; other site 994484001022 homodimer interface [polypeptide binding]; other site 994484001023 active site 994484001024 hypothetical protein; Provisional; Region: PRK06149 994484001025 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001026 active site 994484001027 ATP binding site [chemical binding]; other site 994484001028 substrate binding site [chemical binding]; other site 994484001029 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 994484001030 inhibitor-cofactor binding pocket; inhibition site 994484001031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484001032 catalytic residue [active] 994484001033 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 994484001034 agmatine deiminase; Region: agmatine_aguA; TIGR03380 994484001035 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 994484001036 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 994484001037 catalytic residues [active] 994484001038 outer membrane porin, OprD family; Region: OprD; pfam03573 994484001039 Uncharacterized protein conserved in bacteria (DUF2257); Region: DUF2257; cl01794 994484001040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484001041 AzlC protein; Region: AzlC; cl00570 994484001042 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 994484001043 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001044 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 994484001045 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 994484001046 RES domain; Region: RES; cl02411 994484001047 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484001048 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484001049 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001052 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 994484001053 putative effector binding pocket; other site 994484001054 dimerization interface [polypeptide binding]; other site 994484001055 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484001056 classical (c) SDRs; Region: SDR_c; cd05233 994484001057 NAD(P) binding site [chemical binding]; other site 994484001058 active site 994484001059 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 994484001060 HicB family; Region: HicB; pfam05534 994484001061 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 994484001062 Abi-like protein; Region: Abi_2; cl01988 994484001063 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; cl12011 994484001064 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484001065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484001066 dimer interface [polypeptide binding]; other site 994484001067 conserved gate region; other site 994484001068 putative PBP binding loops; other site 994484001069 ABC-ATPase subunit interface; other site 994484001070 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484001071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484001072 dimer interface [polypeptide binding]; other site 994484001073 conserved gate region; other site 994484001074 putative PBP binding loops; other site 994484001075 ABC-ATPase subunit interface; other site 994484001076 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484001077 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...; Region: PBPb; cd00134 994484001078 substrate binding pocket [chemical binding]; other site 994484001079 membrane-bound complex binding site; other site 994484001080 hinge residues; other site 994484001081 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484001082 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484001083 Walker A/P-loop; other site 994484001084 ATP binding site [chemical binding]; other site 994484001085 Q-loop/lid; other site 994484001086 ABC transporter signature motif; other site 994484001087 Walker B; other site 994484001088 D-loop; other site 994484001089 H-loop/switch region; other site 994484001090 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 994484001091 GAF domain; Region: GAF; cl00853 994484001092 Phytochrome region; Region: PHY; pfam00360 994484001093 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 trans-...; Region: HisKA; cd00082 994484001094 dimer interface [polypeptide binding]; other site 994484001095 phosphorylation site [posttranslational modification] 994484001096 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 994484001097 ATP binding site [chemical binding]; other site 994484001098 Mg2+ binding site [ion binding]; other site 994484001099 G-X-G motif; other site 994484001100 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 994484001101 heme binding pocket [chemical binding]; other site 994484001102 heme ligand [chemical binding]; other site 994484001103 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 994484001104 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 994484001105 adenine DNA glycosylase; Provisional; Region: PRK10880 994484001106 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 994484001107 minor groove reading motif; other site 994484001108 helix-hairpin-helix signature motif; other site 994484001109 substrate binding pocket [chemical binding]; other site 994484001110 active site 994484001111 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 994484001112 DNA binding and oxoG recognition site [nucleotide binding] 994484001113 AsmA family; Region: AsmA; pfam05170 994484001114 Acetyltransferase, GNAT family; Region: DUF3749; pfam12568 994484001115 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 994484001116 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 994484001117 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 994484001118 putative active site pocket [active] 994484001119 4-fold oligomerization interface [polypeptide binding]; other site 994484001120 metal binding residues [ion binding]; metal-binding site 994484001121 3-fold/trimer interface [polypeptide binding]; other site 994484001122 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 994484001123 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 994484001124 putative active site [active] 994484001125 oxyanion strand; other site 994484001126 catalytic triad [active] 994484001127 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 994484001128 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 994484001129 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 994484001130 catalytic residues [active] 994484001131 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 994484001132 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)-formimino-5-; Region: HisF; cd04731 994484001133 substrate binding site [chemical binding]; other site 994484001134 glutamase interaction surface [polypeptide binding]; other site 994484001135 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 994484001136 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...; Region: PBPb; cd00134 994484001137 substrate binding pocket [chemical binding]; other site 994484001138 membrane-bound complex binding site; other site 994484001139 hinge residues; other site 994484001140 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 994484001141 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 994484001142 C-terminal peptidase (prc); Region: prc; TIGR00225 994484001143 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 994484001144 protein binding site [polypeptide binding]; other site 994484001145 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 994484001146 Catalytic dyad [active] 994484001147 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 994484001148 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484001149 Sulfatase; Region: Sulfatase; cl10460 994484001150 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 994484001151 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 994484001152 active site residue [active] 994484001153 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 994484001154 GSH binding site [chemical binding]; other site 994484001155 catalytic residues [active] 994484001156 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 994484001157 SecA binding site; other site 994484001158 Preprotein binding site; other site 994484001159 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 994484001160 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 994484001161 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 994484001162 active site 994484001163 phosphorylation site [posttranslational modification] 994484001164 intermolecular recognition site; other site 994484001165 dimerization interface [polypeptide binding]; other site 994484001166 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...; Region: AAA; cd00009 994484001167 Walker A motif; other site 994484001168 ATP binding site [chemical binding]; other site 994484001169 Walker B motif; other site 994484001170 arginine finger; other site 994484001171 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484001172 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 994484001173 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 994484001174 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 trans-...; Region: HisKA; cd00082 994484001175 dimer interface [polypeptide binding]; other site 994484001176 phosphorylation site [posttranslational modification] 994484001177 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 994484001178 ATP binding site [chemical binding]; other site 994484001179 Mg2+ binding site [ion binding]; other site 994484001180 G-X-G motif; other site 994484001181 Chorismate mutase type II; Region: CM_2; cl00693 994484001182 glutamine synthetase; Provisional; Region: glnA; PRK09469 994484001183 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 994484001184 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484001185 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 994484001186 THUMP domain; Region: THUMP; cl12076 994484001187 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 994484001188 Ligand Binding Site [chemical binding]; other site 994484001189 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 994484001190 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 994484001191 G1 box; other site 994484001192 putative GEF interaction site [polypeptide binding]; other site 994484001193 GTP/Mg2+ binding site [chemical binding]; other site 994484001194 Switch I region; other site 994484001195 G2 box; other site 994484001196 G3 box; other site 994484001197 Switch II region; other site 994484001198 G4 box; other site 994484001199 G5 box; other site 994484001200 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 994484001201 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...; Region: BipA_TypA_C; cd03710 994484001202 Flagellin N-methylase; Region: FliB; cl00497 994484001203 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 994484001204 homodimer interface [polypeptide binding]; other site 994484001205 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 994484001206 active site pocket [active] 994484001207 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 994484001208 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 994484001209 fructose-1,6-bisphosphatase family protein; Region: PLN02628 994484001210 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-1,7-...; Region: FBPase; cd00354 994484001211 AMP binding site [chemical binding]; other site 994484001212 metal binding site [ion binding]; metal-binding site 994484001213 active site 994484001214 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 994484001215 Cache domain; Region: Cache_1; pfam02743 994484001216 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484001217 dimerization interface [polypeptide binding]; other site 994484001218 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001219 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001220 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 994484001221 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 994484001222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484001223 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484001224 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484001225 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 994484001226 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 994484001227 active site 994484001228 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 994484001229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484001230 DNA-binding site [nucleotide binding]; DNA binding site 994484001231 UTRA domain; Region: UTRA; cl01230 994484001232 HutD; Region: HutD; cl01532 994484001233 urocanate hydratase; Provisional; Region: PRK05414 994484001234 urocanate hydratase; Region: hutU; TIGR01228 994484001235 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484001236 Sodium:solute symporter family; Region: SSF; cl00456 994484001237 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484001238 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484001239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484001240 dimer interface [polypeptide binding]; other site 994484001241 conserved gate region; other site 994484001242 putative PBP binding loops; other site 994484001243 ABC-ATPase subunit interface; other site 994484001244 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484001245 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 994484001246 Walker A/P-loop; other site 994484001247 ATP binding site [chemical binding]; other site 994484001248 Q-loop/lid; other site 994484001249 ABC transporter signature motif; other site 994484001250 Walker B; other site 994484001251 D-loop; other site 994484001252 H-loop/switch region; other site 994484001253 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 994484001254 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 994484001255 active sites [active] 994484001256 tetramer interface [polypeptide binding]; other site 994484001257 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 994484001258 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 994484001259 active sites [active] 994484001260 tetramer interface [polypeptide binding]; other site 994484001261 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 994484001262 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 994484001263 active site 994484001264 N-formylglutamate amidohydrolase; Region: FGase; cl01522 994484001265 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484001266 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484001267 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 994484001268 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 994484001269 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 994484001270 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 994484001271 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...; Region: Dtyr_deacylase; cd00563 994484001272 putative active site [active] 994484001273 dimerization interface [polypeptide binding]; other site 994484001274 putative tRNAtyr binding site [nucleotide binding]; other site 994484001275 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 994484001276 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 994484001277 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 994484001278 Ligand binding site [chemical binding]; other site 994484001279 DXD motif; other site 994484001280 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484001281 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001282 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001283 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 994484001284 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484001285 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484001286 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001287 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484001288 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001289 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001290 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 994484001291 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 994484001292 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 994484001293 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 994484001294 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 994484001295 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 994484001296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001297 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 994484001298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 994484001299 SCP-2 sterol transfer family; Region: SCP2; cl01225 994484001300 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 994484001301 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 994484001302 S-adenosylmethionine binding site [chemical binding]; other site 994484001303 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; cl12011 994484001304 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 994484001305 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 994484001306 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 994484001307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484001308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484001309 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 994484001310 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 994484001311 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 994484001312 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 994484001313 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 994484001314 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 994484001315 Protein of unknown function (DUF971); Region: DUF971; cl01414 994484001316 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 994484001317 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...; Region: AAA; cd00009 994484001318 Walker A motif; other site 994484001319 ATP binding site [chemical binding]; other site 994484001320 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484001321 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 994484001322 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 994484001323 active site 994484001324 HslU subunit interaction site [polypeptide binding]; other site 994484001325 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 994484001326 Sporulation related domain; Region: SPOR; cl10051 994484001327 potential frameshift: common BLAST hit: gi|77456627|ref|YP_346132.1| arginyl-tRNA synthetase 994484001328 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 994484001329 KMSK motif region; other site 994484001330 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 994484001331 tRNA binding surface [nucleotide binding]; other site 994484001332 anticodon binding site; other site 994484001333 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 994484001334 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484001335 active site 994484001336 HIGH motif; other site 994484001337 nucleotide binding site [chemical binding]; other site 994484001338 primosome assembly protein PriA; Validated; Region: PRK05580 994484001339 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 994484001340 ATP binding site [chemical binding]; other site 994484001341 putative Mg++ binding site [ion binding]; other site 994484001342 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 994484001343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484001344 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 994484001345 Staphylococcal nuclease homologues; Region: SNc; smart00318 994484001346 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 994484001347 Catalytic site; other site 994484001348 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 994484001349 Malic enzyme, N-terminal domain; Region: malic; pfam00390 994484001350 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 994484001351 putative NAD(P) binding site [chemical binding]; other site 994484001352 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 994484001353 Transglycosylase; Region: Transgly; cl07896 994484001354 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 994484001355 Competence protein A; Region: Competence_A; pfam11104 994484001356 Cell division protein FtsA; Region: FtsA; cl11496 994484001357 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 994484001358 Pilus assembly protein, PilO; Region: PilO; cl01234 994484001359 Pilus assembly protein, PilP; Region: PilP; cl01235 994484001360 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 994484001361 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484001362 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484001363 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 994484001364 shikimate kinase; Reviewed; Region: aroK; PRK00131 994484001365 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...; Region: SK; cd00464 994484001366 ADP binding site [chemical binding]; other site 994484001367 magnesium binding site [ion binding]; other site 994484001368 putative shikimate binding site; other site 994484001369 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 994484001370 active site 994484001371 dimer interface [polypeptide binding]; other site 994484001372 metal binding site [ion binding]; metal-binding site 994484001373 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 994484001374 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484001375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 994484001376 Sporulation related domain; Region: SPOR; cl10051 994484001377 potential frameshift: common BLAST hit: gi|70733957|ref|YP_257597.1| glutamate synthase subunit alpha 994484001378 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 N-...; Region: GltS; cd00713 994484001379 active site 994484001380 dimer interface [polypeptide binding]; other site 994484001381 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 994484001382 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 994484001383 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...; Region: GltS_FMN; cd02808 994484001384 active site 994484001385 FMN binding site [chemical binding]; other site 994484001386 substrate binding site [chemical binding]; other site 994484001387 3Fe-4S cluster binding site [ion binding]; other site 994484001388 Glutamate synthase domain 3 [Amino acid transport and metabolism]; Region: GltB; COG0070 994484001389 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 994484001390 domain interface; other site 994484001391 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 994484001392 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 alpha-; Region: HCP_like; cl14655 994484001393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484001394 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 994484001395 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...; Region: URO-D; cd00717 994484001396 substrate binding site [chemical binding]; other site 994484001397 active site 994484001398 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 994484001399 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484001400 putative substrate translocation pore; other site 994484001401 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 994484001402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001403 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 994484001404 dimerization interface [polypeptide binding]; other site 994484001405 substrate binding pocket [chemical binding]; other site 994484001406 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484001407 Uncharacterized conserved protein [Function unknown]; Region: COG4104 994484001408 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 994484001409 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 994484001410 dimer interface [polypeptide binding]; other site 994484001411 active site 994484001412 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 994484001413 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 994484001414 NAD(P) binding site [chemical binding]; other site 994484001415 homotetramer interface [polypeptide binding]; other site 994484001416 homodimer interface [polypeptide binding]; other site 994484001417 active site 994484001418 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 994484001419 putative active site 1 [active] 994484001420 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 994484001421 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 994484001422 dimer interface [polypeptide binding]; other site 994484001423 active site 994484001424 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 994484001425 S-adenosylmethionine binding site [chemical binding]; other site 994484001426 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 994484001427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484001428 Predicted exporter [General function prediction only]; Region: COG4258 994484001429 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 994484001430 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...; Region: 4HBT; cd00586 994484001431 active site 994484001432 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 994484001433 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 994484001434 active sites [active] 994484001435 tetramer interface [polypeptide binding]; other site 994484001436 Predicted acyltransferase [General function prediction only]; Region: COG4261 994484001437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 994484001438 putative acyl-acceptor binding pocket; other site 994484001439 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 994484001440 Ligand binding site [chemical binding]; other site 994484001441 Putative Catalytic site [active] 994484001442 DXD motif; other site 994484001443 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484001444 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid...; Region: FabA_FabZ; cd00493 994484001445 active site 2 [active] 994484001446 dimer interface [polypeptide binding]; other site 994484001447 active site 1 [active] 994484001448 Predicted membrane protein [Function unknown]; Region: COG4648 994484001449 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484001450 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484001451 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484001452 putative acyl-acceptor binding pocket; other site 994484001453 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484001454 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...; Region: ParA; cd02042 994484001455 P-loop; other site 994484001456 Magnesium ion binding site [ion binding]; other site 994484001457 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...; Region: ParA; cd02042 994484001458 Magnesium ion binding site [ion binding]; other site 994484001459 thioredoxin 2; Provisional; Region: PRK10996 994484001460 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 994484001461 catalytic residues [active] 994484001462 Isochorismatase family; Region: Isochorismatase; pfam00857 994484001463 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 994484001464 catalytic triad [active] 994484001465 dimer interface [polypeptide binding]; other site 994484001466 conserved cis-peptide bond; other site 994484001467 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484001468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001469 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 994484001470 putative effector binding pocket; other site 994484001471 putative dimerization interface [polypeptide binding]; other site 994484001472 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 994484001473 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484001474 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 994484001475 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 994484001476 hypothetical protein; Provisional; Region: PRK11281 994484001477 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 994484001478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484001479 potassium/proton antiporter; Reviewed; Region: PRK05326 994484001480 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; cl09110 994484001481 Transporter associated domain; Region: CorC_HlyC; cl08393 994484001482 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484001483 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484001484 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001485 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001486 Cell division protein ZapA; Region: ZapA; cl01146 994484001487 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484001488 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484001489 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484001490 active site 994484001491 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484001492 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 994484001493 Predicted transcriptional regulator [Transcription]; Region: COG3905 994484001494 Proline dehydrogenase; Region: Pro_dh; cl03282 994484001495 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 994484001496 Glutamate binding site [chemical binding]; other site 994484001497 NAD binding site [chemical binding]; other site 994484001498 catalytic residues [active] 994484001499 Sodium:solute symporter family; Region: SSF; cl00456 994484001500 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 994484001501 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484001502 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484001503 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 994484001504 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 994484001505 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484001506 GAF domain; Region: GAF; cl00853 994484001507 PAS domain S-box; Region: sensory_box; TIGR00229 994484001508 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 994484001509 putative active site [active] 994484001510 heme pocket [chemical binding]; other site 994484001511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484001512 metal binding site [ion binding]; metal-binding site 994484001513 active site 994484001514 I-site; other site 994484001515 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 994484001516 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484001517 putative active site [active] 994484001518 putative metal binding site [ion binding]; other site 994484001519 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 994484001520 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 994484001521 E3 interaction surface; other site 994484001522 lipoyl attachment site [posttranslational modification]; other site 994484001523 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 994484001524 E3 interaction surface; other site 994484001525 lipoyl attachment site [posttranslational modification]; other site 994484001526 e3 binding domain; Region: E3_binding; pfam02817 994484001527 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 994484001528 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 994484001529 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 994484001530 dimer interface [polypeptide binding]; other site 994484001531 TPP-binding site [chemical binding]; other site 994484001532 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 994484001533 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484001534 metal binding triad; other site 994484001535 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 994484001536 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484001537 metal binding triad; other site 994484001538 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 994484001539 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 994484001540 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 994484001541 putative active site [active] 994484001542 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 994484001543 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 994484001544 putative active site [active] 994484001545 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484001546 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 994484001547 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001548 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001549 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001550 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001551 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484001552 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 994484001553 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 994484001554 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 994484001555 putative ADP-binding pocket [chemical binding]; other site 994484001556 Mig-14; Region: Mig-14; pfam07395 994484001557 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 994484001558 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 994484001559 putative ADP-binding pocket [chemical binding]; other site 994484001560 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 994484001561 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 994484001562 active site 994484001563 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 994484001564 O-Antigen ligase; Region: Wzy_C; cl04850 994484001565 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 994484001566 active site 994484001567 substrate binding site [chemical binding]; other site 994484001568 ATP binding site [chemical binding]; other site 994484001569 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 994484001570 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484001571 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 994484001572 Walker A/P-loop; other site 994484001573 ATP binding site [chemical binding]; other site 994484001574 Q-loop/lid; other site 994484001575 ABC transporter signature motif; other site 994484001576 Walker B; other site 994484001577 D-loop; other site 994484001578 H-loop/switch region; other site 994484001579 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 994484001580 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...; Region: APSK; cd02027 994484001581 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 994484001582 ligand-binding site [chemical binding]; other site 994484001583 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 994484001584 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 994484001585 putative ribose interaction site [chemical binding]; other site 994484001586 putative ADP binding site [chemical binding]; other site 994484001587 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484001588 active site 994484001589 nucleotide binding site [chemical binding]; other site 994484001590 HIGH motif; other site 994484001591 KMSKS motif; other site 994484001592 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 994484001593 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484001594 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...; Region: Aldo_ket_red; cd06660 994484001595 active site 994484001596 catalytic tetrad [active] 994484001597 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 994484001598 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484001599 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 994484001600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001602 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 994484001603 dimerization interface [polypeptide binding]; other site 994484001604 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 994484001605 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 994484001606 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 994484001607 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484001608 Outer membrane efflux protein; Region: OEP; pfam02321 994484001609 Outer membrane efflux protein; Region: OEP; pfam02321 994484001610 ThiC family; Region: ThiC; cl08031 994484001611 Sodium:solute symporter family; Region: SSF; cl00456 994484001612 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 994484001613 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 994484001614 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...; Region: ADPRase_NUDT5; cd03424 994484001615 dimer interface [polypeptide binding]; other site 994484001616 ADP-ribose binding site [chemical binding]; other site 994484001617 active site 994484001618 nudix motif; other site 994484001619 metal binding site [ion binding]; metal-binding site 994484001620 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 994484001621 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 994484001622 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484001623 active site 994484001624 metal binding site [ion binding]; metal-binding site 994484001625 hexamer interface [polypeptide binding]; other site 994484001626 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 994484001627 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 994484001628 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 994484001629 ATP binding site [chemical binding]; other site 994484001630 Mg2+ binding site [ion binding]; other site 994484001631 G-X-G motif; other site 994484001632 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 994484001633 anchoring element; other site 994484001634 dimer interface [polypeptide binding]; other site 994484001635 ATP binding site [chemical binding]; other site 994484001636 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 994484001637 active site 994484001638 metal binding site [ion binding]; metal-binding site 994484001639 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 994484001640 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 994484001641 catalytic motif [active] 994484001642 Catalytic residue [active] 994484001643 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 994484001644 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...; Region: TOP4c; cd00187 994484001645 CAP-like domain; other site 994484001646 Active site [active] 994484001647 primary dimer interface [polypeptide binding]; other site 994484001648 Protein of unknown function (DUF330); Region: DUF330; cl01135 994484001649 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 994484001650 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 994484001651 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 994484001652 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484001653 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 994484001654 motif II; other site 994484001655 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 994484001656 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 994484001657 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...; Region: TST_Repeat_1; cd01448 994484001658 active site residue [active] 994484001659 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 994484001660 active site residue [active] 994484001661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484001662 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 994484001663 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484001664 flagellar motor protein MotB; Validated; Region: motB; PRK09041 994484001665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484001666 ligand binding site [chemical binding]; other site 994484001667 GTPase RsgA; Reviewed; Region: PRK12288 994484001668 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 994484001669 GTPase/OB domain interface [polypeptide binding]; other site 994484001670 GTPase/Zn-binding domain interface [polypeptide binding]; other site 994484001671 GTP/Mg2+ binding site [chemical binding]; other site 994484001672 G4 box; other site 994484001673 G5 box; other site 994484001674 G1 box; other site 994484001675 Switch I region; other site 994484001676 G2 box; other site 994484001677 G3 box; other site 994484001678 Switch II region; other site 994484001679 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 994484001680 putative active site [active] 994484001681 putative substrate binding site [chemical binding]; other site 994484001682 catalytic site [active] 994484001683 dimer interface [polypeptide binding]; other site 994484001684 Predicted membrane protein [Function unknown]; Region: COG2860 994484001685 UPF0126 domain; Region: UPF0126; pfam03458 994484001686 UPF0126 domain; Region: UPF0126; pfam03458 994484001687 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 994484001688 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 994484001689 putative carbohydrate kinase; Provisional; Region: PRK10565 994484001690 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 994484001691 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 994484001692 putative substrate binding site [chemical binding]; other site 994484001693 putative ATP binding site [chemical binding]; other site 994484001694 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 994484001695 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 994484001696 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 994484001697 active site 994484001698 metal binding site [ion binding]; metal-binding site 994484001699 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 994484001700 putative peptidoglycan binding site; other site 994484001701 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 994484001702 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 994484001703 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 994484001704 ATP binding site [chemical binding]; other site 994484001705 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 994484001706 IPP transferase; Region: IPPT; cl00403 994484001707 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 994484001708 Sm1 motif; other site 994484001709 intra - hexamer interaction site; other site 994484001710 inter - hexamer interaction site [polypeptide binding]; other site 994484001711 nucleotide binding pocket [chemical binding]; other site 994484001712 Sm2 motif; other site 994484001713 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 994484001714 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 994484001715 G1 box; other site 994484001716 GTP/Mg2+ binding site [chemical binding]; other site 994484001717 Switch I region; other site 994484001718 G2 box; other site 994484001719 G3 box; other site 994484001720 Switch II region; other site 994484001721 G4 box; other site 994484001722 G5 box; other site 994484001723 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 994484001724 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 994484001725 HflK protein; Region: hflK; TIGR01933 994484001726 FtsH protease regulator HflC; Provisional; Region: PRK11029 994484001727 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 994484001728 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 994484001729 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 994484001730 dimer interface [polypeptide binding]; other site 994484001731 motif 1; other site 994484001732 active site 994484001733 motif 2; other site 994484001734 motif 3; other site 994484001735 adenylosuccinate synthetase; Provisional; Region: PRK01117 994484001736 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 r-...; Region: AdSS; cd03108 994484001737 GDP-binding site [chemical binding]; other site 994484001738 ACT binding site; other site 994484001739 IMP binding site; other site 994484001740 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484001741 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484001742 ribonuclease R; Region: RNase_R; TIGR02063 994484001743 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 994484001744 RNB domain; Region: RNB; pfam00773 994484001745 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...; Region: S1_RNase_R; cd04471 994484001746 RNA binding site [nucleotide binding]; other site 994484001747 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 994484001748 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 994484001749 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 994484001750 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 994484001751 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 994484001752 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 994484001753 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 994484001754 replicative DNA helicase; Provisional; Region: PRK05748 994484001755 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 994484001756 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 994484001757 Walker A motif; other site 994484001758 ATP binding site [chemical binding]; other site 994484001759 Walker B motif; other site 994484001760 DNA binding loops [nucleotide binding] 994484001761 hypothetical protein; Provisional; Region: PRK01254 994484001762 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; cl15259 994484001763 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 994484001764 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484001765 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 994484001766 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 994484001767 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 994484001768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 994484001769 Uncharacterized conserved protein [Function unknown]; Region: COG2308 994484001770 Domain of unknown function (DUF404); Region: DUF404; pfam04169 994484001771 Domain of unknown function (DUF407); Region: DUF407; pfam04174 994484001772 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 994484001773 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484001774 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 994484001775 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 994484001776 active site 994484001777 8-oxo-dGMP binding site [chemical binding]; other site 994484001778 nudix motif; other site 994484001779 metal binding site [ion binding]; metal-binding site 994484001780 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 994484001781 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484001782 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 994484001783 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...; Region: NAD_synthase; cd00553 994484001784 homodimer interface [polypeptide binding]; other site 994484001785 NAD binding pocket [chemical binding]; other site 994484001786 ATP binding pocket [chemical binding]; other site 994484001787 Mg binding site [ion binding]; other site 994484001788 active-site loop [active] 994484001789 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 994484001790 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: PncB_like; cd01401 994484001791 active site 994484001792 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484001793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001794 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 994484001795 dimerization interface [polypeptide binding]; other site 994484001796 substrate binding pocket [chemical binding]; other site 994484001797 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 994484001798 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484001799 tetrameric interface [polypeptide binding]; other site 994484001800 NAD binding site [chemical binding]; other site 994484001801 catalytic residues [active] 994484001802 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484001803 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484001804 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484001805 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 994484001806 dimerization interface [polypeptide binding]; other site 994484001807 ligand binding site [chemical binding]; other site 994484001808 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 994484001809 TM-ABC transporter signature motif; other site 994484001810 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 994484001811 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 994484001812 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 994484001813 TM-ABC transporter signature motif; other site 994484001814 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 994484001815 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 994484001816 Walker A/P-loop; other site 994484001817 ATP binding site [chemical binding]; other site 994484001818 Q-loop/lid; other site 994484001819 ABC transporter signature motif; other site 994484001820 Walker B; other site 994484001821 D-loop; other site 994484001822 H-loop/switch region; other site 994484001823 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484001824 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 994484001825 Walker A/P-loop; other site 994484001826 ATP binding site [chemical binding]; other site 994484001827 Q-loop/lid; other site 994484001828 ABC transporter signature motif; other site 994484001829 Walker B; other site 994484001830 D-loop; other site 994484001831 H-loop/switch region; other site 994484001832 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 994484001833 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484001834 putative NAD(P) binding site [chemical binding]; other site 994484001835 homotetramer interface [polypeptide binding]; other site 994484001836 homodimer interface [polypeptide binding]; other site 994484001837 active site 994484001838 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 994484001839 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 994484001840 dimerization interface [polypeptide binding]; other site 994484001841 putative active cleft [active] 994484001842 HupE / UreJ protein; Region: HupE_UreJ; cl01011 994484001843 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484001844 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 994484001845 UreF; Region: UreF; pfam01730 994484001846 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 994484001847 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 C-...; Region: UreE; cd00571 994484001848 dimer interface [polypeptide binding]; other site 994484001849 catalytic residues [active] 994484001850 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 994484001851 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484001852 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 994484001853 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 994484001854 Ferritin-like domain; Region: Ferritin; pfam00210 994484001855 dinuclear metal binding motif [ion binding]; other site 994484001856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484001858 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 994484001859 dimerization interface [polypeptide binding]; other site 994484001860 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484001861 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 994484001862 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; cl14892 994484001863 hypothetical protein; Provisional; Region: PRK11505 994484001864 psiF repeat; Region: PsiF_repeat; pfam07769 994484001865 psiF repeat; Region: PsiF_repeat; pfam07769 994484001866 Domain of unknown function DUF20; Region: UPF0118; cl00465 994484001867 putative chaperone; Provisional; Region: PRK11678 994484001868 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 994484001869 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...; Region: DnaJ; cd06257 994484001870 HSP70 interaction site [polypeptide binding]; other site 994484001871 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 994484001872 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 994484001873 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 994484001874 urease subunit alpha; Reviewed; Region: ureC; PRK13207 994484001875 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 994484001876 subunit interactions [polypeptide binding]; other site 994484001877 active site 994484001878 flap region; other site 994484001879 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...; Region: Urease_beta; cd00407 994484001880 gamma-beta subunit interface [polypeptide binding]; other site 994484001881 alpha-beta subunit interface [polypeptide binding]; other site 994484001882 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484001883 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 994484001884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484001885 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 994484001886 alpha-gamma subunit interface [polypeptide binding]; other site 994484001887 beta-gamma subunit interface [polypeptide binding]; other site 994484001888 UreD urease accessory protein; Region: UreD; cl00530 994484001889 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 994484001890 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 994484001891 Walker A/P-loop; other site 994484001892 ATP binding site [chemical binding]; other site 994484001893 Q-loop/lid; other site 994484001894 ABC transporter signature motif; other site 994484001895 Walker B; other site 994484001896 D-loop; other site 994484001897 H-loop/switch region; other site 994484001898 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 994484001899 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 994484001900 Walker A/P-loop; other site 994484001901 ATP binding site [chemical binding]; other site 994484001902 Q-loop/lid; other site 994484001903 ABC transporter signature motif; other site 994484001904 Walker B; other site 994484001905 D-loop; other site 994484001906 H-loop/switch region; other site 994484001907 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 994484001908 TM-ABC transporter signature motif; other site 994484001909 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 994484001910 TM-ABC transporter signature motif; other site 994484001911 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484001912 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 994484001913 putative ligand binding site [chemical binding]; other site 994484001914 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...; Region: TM_ABC_iron-siderophores_like; cd06550 994484001915 ABC-ATPase subunit interface; other site 994484001916 dimer interface [polypeptide binding]; other site 994484001917 putative PBP binding regions; other site 994484001918 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 994484001919 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 994484001920 putative ligand binding residues [chemical binding]; other site 994484001921 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 994484001922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484001923 Walker A/P-loop; other site 994484001924 ATP binding site [chemical binding]; other site 994484001925 Q-loop/lid; other site 994484001926 ABC transporter signature motif; other site 994484001927 Walker B; other site 994484001928 D-loop; other site 994484001929 H-loop/switch region; other site 994484001930 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484001931 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484001932 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 994484001933 N-terminal plug; other site 994484001934 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 994484001935 ligand-binding site [chemical binding]; other site 994484001936 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 994484001937 Protein of unknown function (DUF461); Region: DUF461; cl01071 994484001938 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 994484001939 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 994484001940 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 994484001941 CbiD; Region: CbiD; cl00828 994484001942 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484001943 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 994484001944 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; cl12011 994484001945 precorrin-3B synthase; Region: CobG; TIGR02435 994484001946 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484001947 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484001948 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 994484001949 Precorrin-8X methylmutase; Region: CbiC; pfam02570 994484001950 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484001951 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 994484001952 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 994484001953 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484001954 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 994484001955 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 994484001956 MarC family integral membrane protein; Region: MarC; cl00919 994484001957 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 994484001958 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 994484001959 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 trans-...; Region: HisKA; cd00082 994484001960 dimer interface [polypeptide binding]; other site 994484001961 phosphorylation site [posttranslational modification] 994484001962 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 994484001963 ATP binding site [chemical binding]; other site 994484001964 Mg2+ binding site [ion binding]; other site 994484001965 G-X-G motif; other site 994484001966 Response regulator receiver domain; Region: Response_reg; pfam00072 994484001967 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 994484001968 active site 994484001969 phosphorylation site [posttranslational modification] 994484001970 intermolecular recognition site; other site 994484001971 dimerization interface [polypeptide binding]; other site 994484001972 Response regulator receiver domain; Region: Response_reg; pfam00072 994484001973 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 994484001974 active site 994484001975 phosphorylation site [posttranslational modification] 994484001976 intermolecular recognition site; other site 994484001977 dimerization interface [polypeptide binding]; other site 994484001978 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 994484001979 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 994484001980 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484001981 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 994484001982 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 994484001983 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 994484001984 purine monophosphate binding site [chemical binding]; other site 994484001985 dimer interface [polypeptide binding]; other site 994484001986 putative catalytic residues [active] 994484001987 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 994484001988 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 994484001989 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484001990 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 994484001991 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...; Region: DUS_like_FMN; cd02801 994484001992 FMN binding site [chemical binding]; other site 994484001993 active site 994484001994 catalytic residues [active] 994484001995 substrate binding site [chemical binding]; other site 994484001996 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 994484001997 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 994484001998 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 994484001999 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; cl12011 994484002000 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 994484002001 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484002002 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484002003 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 994484002004 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 994484002005 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 994484002006 carboxyltransferase (CT) interaction site; other site 994484002007 biotinylation site [posttranslational modification]; other site 994484002008 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 994484002009 active site 994484002010 trimer interface [polypeptide binding]; other site 994484002011 dimer interface [polypeptide binding]; other site 994484002012 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002013 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484002014 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 994484002015 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 994484002016 active site 994484002017 phosphorylation site [posttranslational modification] 994484002018 intermolecular recognition site; other site 994484002019 dimerization interface [polypeptide binding]; other site 994484002020 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484002021 metal binding site [ion binding]; metal-binding site 994484002022 active site 994484002023 I-site; other site 994484002024 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 994484002025 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 994484002026 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 994484002027 nudix motif; other site 994484002028 translation initiation factor Sui1; Validated; Region: PRK06824 994484002029 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 994484002030 Predicted RNA interaction site [nucleotide binding]; other site 994484002031 putative binding site; other site 994484002032 Mutations affecting start-site selection; other site 994484002033 arginine decarboxylase; Provisional; Region: PRK05354 994484002034 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 994484002035 dimer interface [polypeptide binding]; other site 994484002036 active site 994484002037 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484002038 catalytic residues [active] 994484002039 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 994484002040 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484002041 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484002042 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484002043 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 994484002044 MatE; Region: MatE; cl10513 994484002045 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 994484002046 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 994484002047 S-adenosylmethionine binding site [chemical binding]; other site 994484002048 enoyl-CoA hydratase; Region: PLN02864 994484002049 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 994484002050 active site 2 [active] 994484002051 active site 1 [active] 994484002052 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 994484002053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002054 NAD(P) binding site [chemical binding]; other site 994484002055 active site 994484002056 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 994484002057 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 994484002058 dimer interface [polypeptide binding]; other site 994484002059 active site 994484002060 Membrane transport protein; Region: Mem_trans; cl09117 994484002061 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484002062 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 994484002063 ATP binding site [chemical binding]; other site 994484002064 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 994484002065 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 994484002066 DNA binding residues [nucleotide binding] 994484002067 dimer interface [polypeptide binding]; other site 994484002068 copper binding site [ion binding]; other site 994484002069 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 994484002070 metal-binding site [ion binding] 994484002071 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484002072 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 994484002073 metal-binding site [ion binding] 994484002074 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484002075 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 994484002076 metal-binding site [ion binding] 994484002077 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 994484002078 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 994484002079 putative substrate translocation pore; other site 994484002080 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 994484002081 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 994484002082 putative NAD(P) binding site [chemical binding]; other site 994484002083 dimer interface [polypeptide binding]; other site 994484002084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002086 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 994484002087 putative effector binding pocket; other site 994484002088 dimerization interface [polypeptide binding]; other site 994484002089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002090 benzoate transport; Region: 2A0115; TIGR00895 994484002091 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 994484002092 putative substrate translocation pore; other site 994484002093 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 994484002094 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 994484002095 active site 994484002096 purine riboside binding site [chemical binding]; other site 994484002097 flavanone-3-hydroxylase; Provisional; Region: PLN03176 994484002098 oxidase reductase; Provisional; Region: PTZ00273 994484002099 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 994484002100 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 994484002101 putative ligand binding site [chemical binding]; other site 994484002102 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 994484002103 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 994484002104 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 994484002105 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 994484002106 active site 994484002107 putative substrate binding pocket [chemical binding]; other site 994484002108 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 994484002109 NADP binding site [chemical binding]; other site 994484002110 homodimer interface [polypeptide binding]; other site 994484002111 active site 994484002112 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 994484002113 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 994484002114 DNA binding residues [nucleotide binding] 994484002115 dimer interface [polypeptide binding]; other site 994484002116 metal binding site [ion binding]; metal-binding site 994484002117 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 994484002118 TM-ABC transporter signature motif; other site 994484002119 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 994484002120 TM-ABC transporter signature motif; other site 994484002121 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 994484002122 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...; Region: ABC_Carb_Monos_I; cd03216 994484002123 Walker A/P-loop; other site 994484002124 ATP binding site [chemical binding]; other site 994484002125 Q-loop/lid; other site 994484002126 ABC transporter signature motif; other site 994484002127 Walker B; other site 994484002128 D-loop; other site 994484002129 H-loop/switch region; other site 994484002130 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 994484002131 Uncharacterized conserved protein [Function unknown]; Region: COG1739 994484002132 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 994484002133 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 994484002134 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 994484002135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484002136 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 994484002137 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002138 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002139 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 994484002140 dimerization interface [polypeptide binding]; other site 994484002141 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 994484002142 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 994484002143 inhibitor-cofactor binding pocket; inhibition site 994484002144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484002145 catalytic residue [active] 994484002146 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 994484002147 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484002148 tetrameric interface [polypeptide binding]; other site 994484002149 NAD binding site [chemical binding]; other site 994484002150 catalytic residues [active] 994484002151 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 994484002152 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 994484002153 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 994484002154 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484002155 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484002156 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 994484002157 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 994484002158 Putative ATPase (DUF699); Region: DUF699; pfam05127 994484002159 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 994484002160 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484002161 metal binding site [ion binding]; metal-binding site 994484002162 active site 994484002163 I-site; other site 994484002164 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484002165 ligand binding site [chemical binding]; other site 994484002166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002168 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 994484002169 dimerization interface [polypeptide binding]; other site 994484002170 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 994484002171 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484002172 tetrameric interface [polypeptide binding]; other site 994484002173 NAD binding site [chemical binding]; other site 994484002174 catalytic residues [active] 994484002175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002176 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 994484002177 Cupin domain; Region: Cupin_2; cl09118 994484002178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002179 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002180 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 994484002181 putative dimerization interface [polypeptide binding]; other site 994484002182 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484002183 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484002184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002186 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 994484002187 dimerization interface [polypeptide binding]; other site 994484002188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002189 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484002190 NAD(P) binding site [chemical binding]; other site 994484002191 active site 994484002192 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 994484002193 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484002194 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 994484002195 gluconate transporter; Region: gntP; TIGR00791 994484002196 GntP family permease; Region: GntP_permease; cl15264 994484002197 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484002198 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...; Region: SIS_RpiR; cd05013 994484002199 putative active site [active] 994484002200 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 994484002201 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 994484002202 active site 994484002203 putative substrate binding pocket [chemical binding]; other site 994484002204 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 994484002205 dimer interface [polypeptide binding]; other site 994484002206 ligand binding site [chemical binding]; other site 994484002207 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484002208 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484002209 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 994484002210 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 994484002211 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 994484002212 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; cl04143 994484002213 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484002214 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002215 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484002216 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 994484002217 catalytic core [active] 994484002218 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 994484002219 active site 994484002220 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 994484002221 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 994484002222 dimer interface [polypeptide binding]; other site 994484002223 active site 994484002224 heme binding site [chemical binding]; other site 994484002225 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 994484002226 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 994484002227 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484002228 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 994484002229 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 994484002230 Walker A/P-loop; other site 994484002231 ATP binding site [chemical binding]; other site 994484002232 Q-loop/lid; other site 994484002233 ABC transporter signature motif; other site 994484002234 Walker B; other site 994484002235 D-loop; other site 994484002236 H-loop/switch region; other site 994484002237 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002238 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484002239 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 994484002240 Walker A/P-loop; other site 994484002241 ATP binding site [chemical binding]; other site 994484002242 Q-loop/lid; other site 994484002243 ABC transporter signature motif; other site 994484002244 Walker B; other site 994484002245 D-loop; other site 994484002246 H-loop/switch region; other site 994484002247 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002248 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 994484002249 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002250 dimer interface [polypeptide binding]; other site 994484002251 conserved gate region; other site 994484002252 putative PBP binding loops; other site 994484002253 ABC-ATPase subunit interface; other site 994484002254 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484002255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002256 dimer interface [polypeptide binding]; other site 994484002257 conserved gate region; other site 994484002258 putative PBP binding loops; other site 994484002259 ABC-ATPase subunit interface; other site 994484002260 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 994484002261 Autoinducer binding domain; Region: Autoind_bind; pfam03472 994484002262 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...; Region: LuxR_C_like; cd06170 994484002263 DNA binding residues [nucleotide binding] 994484002264 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 994484002265 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 994484002266 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 994484002267 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484002268 Surface antigen; Region: Bac_surface_Ag; cl03097 994484002269 haemagglutination activity domain; Region: Haemagg_act; cl05436 994484002270 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 994484002271 short chain dehydrogenase; Provisional; Region: PRK07825 994484002272 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 994484002273 NADP binding site [chemical binding]; other site 994484002274 active site 994484002275 steroid binding site; other site 994484002276 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484002277 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484002278 2-isopropylmalate synthase; Validated; Region: PRK03739 994484002279 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 994484002280 active site 994484002281 catalytic residues [active] 994484002282 metal binding site [ion binding]; metal-binding site 994484002283 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 994484002284 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 994484002285 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 994484002286 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 994484002287 non-specific DNA binding site [nucleotide binding]; other site 994484002288 salt bridge; other site 994484002289 sequence-specific DNA binding site [nucleotide binding]; other site 994484002290 Domain of unknown function (DUF932); Region: DUF932; cl12129 994484002291 Predicted transcriptional regulator [Transcription]; Region: COG2378 994484002292 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 994484002293 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 994484002294 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; cl12011 994484002295 Protein of unknown function DUF262; Region: DUF262; cl14890 994484002296 Protein of unknown function DUF262; Region: DUF262; cl14890 994484002297 TIGR02687 family protein; Region: TIGR02687 994484002298 PglZ domain; Region: PglZ; pfam08665 994484002299 putative ATP-dependent protease; Region: PHA01747; cl11979 994484002300 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 994484002301 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 994484002302 MPN+ (JAMM) motif; other site 994484002303 Zinc-binding site [ion binding]; other site 994484002304 potential frameshift: common BLAST hit: gi|167035734|ref|YP_001670965.1| phage-like protein endonuclease-like protein 994484002305 Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]; Region: COG5377 994484002306 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 994484002307 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 994484002308 Domain of unknown function (DUF932); Region: DUF932; cl12129 994484002309 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 994484002310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002311 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 994484002312 dimerization interface [polypeptide binding]; other site 994484002313 substrate binding pocket [chemical binding]; other site 994484002314 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 994484002315 active site/substrate binding site [active] 994484002316 tetramer interface [polypeptide binding]; other site 994484002317 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 994484002318 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 994484002319 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 994484002320 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 994484002321 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; cl01116 994484002322 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 994484002323 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 994484002324 putative active site [active] 994484002325 putative metal-binding site [ion binding]; other site 994484002326 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 994484002327 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484002328 integrase; Provisional; Region: PRK09692 994484002329 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 994484002330 active site 994484002331 Int/Topo IB signature motif; other site 994484002332 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 994484002333 FAD binding domain; Region: FAD_binding_4; pfam01565 994484002334 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 alpha-; Region: HCP_like; cl14655 994484002335 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 994484002336 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 994484002337 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 994484002338 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 994484002339 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 alpha-; Region: HCP_like; cl14655 994484002340 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 994484002341 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 994484002342 Cysteine-rich domain; Region: CCG; pfam02754 994484002343 Cysteine-rich domain; Region: CCG; pfam02754 994484002344 glycolate transporter; Provisional; Region: PRK09695 994484002345 L-lactate permease; Region: Lactate_perm; cl00701 994484002346 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484002347 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484002348 DNA-binding site [nucleotide binding]; DNA binding site 994484002349 FCD domain; Region: FCD; cl11656 994484002350 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 994484002351 SmpB-tmRNA interface; other site 994484002352 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 994484002353 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 994484002354 putative coenzyme Q binding site [chemical binding]; other site 994484002355 Uncharacterised protein family (UPF0125); Region: UPF0125; cl01096 994484002356 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 994484002357 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 994484002358 metal binding site 2 [ion binding]; metal-binding site 994484002359 putative DNA binding helix; other site 994484002360 metal binding site 1 [ion binding]; metal-binding site 994484002361 dimer interface [polypeptide binding]; other site 994484002362 structural Zn2+ binding site [ion binding]; other site 994484002363 recombination and repair protein; Provisional; Region: PRK10869 994484002364 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...; Region: ABC_RecN; cd03241 994484002365 Walker A/P-loop; other site 994484002366 ATP binding site [chemical binding]; other site 994484002367 Q-loop/lid; other site 994484002368 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...; Region: ABC_RecN; cd03241 994484002369 Q-loop/lid; other site 994484002370 ABC transporter signature motif; other site 994484002371 Walker B; other site 994484002372 D-loop; other site 994484002373 H-loop/switch region; other site 994484002374 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 994484002375 dimer interface [polypeptide binding]; other site 994484002376 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 994484002377 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 994484002378 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 994484002379 chaperone protein DnaJ; Provisional; Region: PRK10767 994484002380 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...; Region: DnaJ; cd06257 994484002381 HSP70 interaction site [polypeptide binding]; other site 994484002382 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 994484002383 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 994484002384 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 994484002385 dihydrodipicolinate reductase; Provisional; Region: PRK00048 994484002386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002387 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 994484002388 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 994484002389 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 994484002390 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 994484002391 catalytic site [active] 994484002392 subunit interface [polypeptide binding]; other site 994484002393 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 994484002394 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484002395 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484002396 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 994484002397 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484002398 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484002399 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 994484002400 IMP binding site; other site 994484002401 dimer interface [polypeptide binding]; other site 994484002402 interdomain contacts; other site 994484002403 partial ornithine binding site; other site 994484002404 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 994484002405 domain; Region: GreA_GreB_N; pfam03449 994484002406 C-term; Region: GreA_GreB; pfam01272 994484002407 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 994484002408 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; cl12011 994484002409 FtsH Extracellular; Region: FtsH_ext; pfam06480 994484002410 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 994484002411 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...; Region: AAA; cd00009 994484002412 Walker A motif; other site 994484002413 ATP binding site [chemical binding]; other site 994484002414 Walker B motif; other site 994484002415 arginine finger; other site 994484002416 Peptidase family M41; Region: Peptidase_M41; pfam01434 994484002417 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 994484002418 dihydropteroate synthase; Region: DHPS; TIGR01496 994484002419 substrate binding pocket [chemical binding]; other site 994484002420 dimer interface [polypeptide binding]; other site 994484002421 inhibitor binding site; inhibition site 994484002422 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 994484002423 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 UDP-N-...; Region: GlmM; cd05802 994484002424 active site 994484002425 substrate binding site [chemical binding]; other site 994484002426 metal binding site [ion binding]; metal-binding site 994484002427 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 994484002428 substrate binding site [chemical binding]; other site 994484002429 dimer interface [polypeptide binding]; other site 994484002430 catalytic triad [active] 994484002431 ribosome maturation protein RimP; Reviewed; Region: PRK00092 994484002432 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...; Region: Sm_like; cl00259 994484002433 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...; Region: Sm_like; cl00259 994484002434 Sm1 motif; other site 994484002435 D3 - B interaction site; other site 994484002436 D1 - D2 interaction site; other site 994484002437 Hfq - Hfq interaction site; other site 994484002438 RNA binding pocket [nucleotide binding]; other site 994484002439 Sm2 motif; other site 994484002440 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 994484002441 NusA N-terminal domain; Region: NusA_N; pfam08529 994484002442 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...; Region: S1_NusA; cd04455 994484002443 RNA binding site [nucleotide binding]; other site 994484002444 homodimer interface [polypeptide binding]; other site 994484002445 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 994484002446 G-X-X-G motif; other site 994484002447 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 994484002448 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 994484002449 translation initiation factor IF-2; Validated; Region: infB; PRK05306 994484002450 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 994484002451 translation initiation factor IF-2; Region: IF-2; TIGR00487 994484002452 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 994484002453 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 994484002454 G1 box; other site 994484002455 putative GEF interaction site [polypeptide binding]; other site 994484002456 GTP/Mg2+ binding site [chemical binding]; other site 994484002457 Switch I region; other site 994484002458 G2 box; other site 994484002459 G3 box; other site 994484002460 Switch II region; other site 994484002461 G4 box; other site 994484002462 G5 box; other site 994484002463 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...; Region: IF2_mtIF2_II; cd03702 994484002464 Translation-initiation factor 2; Region: IF-2; pfam11987 994484002465 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...; Region: mtIF2_IVc; cd03692 994484002466 Ribosome-binding factor A; Region: RBFA; cl00542 994484002467 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 994484002468 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 994484002469 RNA binding site [nucleotide binding]; other site 994484002470 active site 994484002471 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...; Region: Ribosomal_S15p_S13e; cd00353 994484002472 16S/18S rRNA binding site [nucleotide binding]; other site 994484002473 S13e-L30e interaction site [polypeptide binding]; other site 994484002474 25S rRNA binding site [nucleotide binding]; other site 994484002475 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 994484002476 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 994484002477 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 994484002478 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 994484002479 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 994484002480 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 994484002481 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 994484002482 putative nucleic acid binding region [nucleotide binding]; other site 994484002483 G-X-X-G motif; other site 994484002484 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 994484002485 RNA binding site [nucleotide binding]; other site 994484002486 domain interface; other site 994484002487 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 994484002488 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 994484002489 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 5-...; Region: QPRTase; cd01572 994484002490 dimerization interface [polypeptide binding]; other site 994484002491 active site 994484002492 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 994484002493 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 994484002494 amidase catalytic site [active] 994484002495 Zn binding residues [ion binding]; other site 994484002496 substrate binding site [chemical binding]; other site 994484002497 CobD/Cbib protein; Region: CobD_Cbib; cl00561 994484002498 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484002499 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002500 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484002501 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 994484002502 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 994484002503 active site 994484002504 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 994484002505 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484002506 DNA binding site [nucleotide binding] 994484002507 domain linker motif; other site 994484002508 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 994484002509 dimerization interface [polypeptide binding]; other site 994484002510 ligand binding site [chemical binding]; other site 994484002511 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 994484002512 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 994484002513 active site 994484002514 phosphorylation site [posttranslational modification] 994484002515 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; cl00163 994484002516 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 994484002517 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 994484002518 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484002519 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 994484002520 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 994484002521 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 994484002522 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 994484002523 putative substrate binding site [chemical binding]; other site 994484002524 putative ATP binding site [chemical binding]; other site 994484002525 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 994484002526 P-loop; other site 994484002527 active site 994484002528 phosphorylation site [posttranslational modification] 994484002529 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 994484002530 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 994484002531 P-loop; other site 994484002532 active site 994484002533 phosphorylation site [posttranslational modification] 994484002534 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 994484002535 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 994484002536 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484002537 putative active site [active] 994484002538 putative metal binding site [ion binding]; other site 994484002539 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484002540 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484002541 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 994484002542 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484002543 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_like1; cd06200 994484002544 FAD binding pocket [chemical binding]; other site 994484002545 FAD binding motif [chemical binding]; other site 994484002546 catalytic residues [active] 994484002547 NAD binding pocket [chemical binding]; other site 994484002548 phosphate binding motif [ion binding]; other site 994484002549 beta-alpha-beta structure motif; other site 994484002550 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 994484002551 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 994484002552 dimer interface [polypeptide binding]; other site 994484002553 active site 994484002554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484002555 catalytic residues [active] 994484002556 substrate binding site [chemical binding]; other site 994484002557 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 994484002558 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...; Region: ABC_OpuCA_Osmoprotection; cd03295 994484002559 Walker A/P-loop; other site 994484002560 ATP binding site [chemical binding]; other site 994484002561 Q-loop/lid; other site 994484002562 ABC transporter signature motif; other site 994484002563 Walker B; other site 994484002564 D-loop; other site 994484002565 H-loop/switch region; other site 994484002566 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-...; Region: CBS_pair; cl09141 994484002567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002568 dimer interface [polypeptide binding]; other site 994484002569 conserved gate region; other site 994484002570 ABC-ATPase subunit interface; other site 994484002571 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484002572 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484002573 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002574 ABC-ATPase subunit interface; other site 994484002575 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 994484002576 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 994484002577 G1 box; other site 994484002578 putative GEF interaction site [polypeptide binding]; other site 994484002579 GTP/Mg2+ binding site [chemical binding]; other site 994484002580 Switch I region; other site 994484002581 G2 box; other site 994484002582 G3 box; other site 994484002583 Switch II region; other site 994484002584 G4 box; other site 994484002585 G5 box; other site 994484002586 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 994484002587 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484002588 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 994484002589 Walker A/P-loop; other site 994484002590 ATP binding site [chemical binding]; other site 994484002591 Q-loop/lid; other site 994484002592 ABC transporter signature motif; other site 994484002593 Walker B; other site 994484002594 D-loop; other site 994484002595 H-loop/switch region; other site 994484002596 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002597 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 994484002598 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 994484002599 Walker A/P-loop; other site 994484002600 ATP binding site [chemical binding]; other site 994484002601 Q-loop/lid; other site 994484002602 ABC transporter signature motif; other site 994484002603 Walker B; other site 994484002604 D-loop; other site 994484002605 H-loop/switch region; other site 994484002606 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002607 dipeptide transporter; Provisional; Region: PRK10913 994484002608 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484002609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002610 dimer interface [polypeptide binding]; other site 994484002611 conserved gate region; other site 994484002612 putative PBP binding loops; other site 994484002613 ABC-ATPase subunit interface; other site 994484002614 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484002615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002616 dimer interface [polypeptide binding]; other site 994484002617 conserved gate region; other site 994484002618 putative PBP binding loops; other site 994484002619 ABC-ATPase subunit interface; other site 994484002620 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484002621 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484002622 peptide binding site [polypeptide binding]; other site 994484002623 outer membrane porin, OprD family; Region: OprD; pfam03573 994484002624 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484002625 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484002626 peptide binding site [polypeptide binding]; other site 994484002627 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484002628 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484002629 peptide binding site [polypeptide binding]; other site 994484002630 Protein of unknown function (DUF541); Region: SIMPL; cl01077 994484002631 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 994484002632 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 994484002633 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 994484002634 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 994484002635 active site 994484002636 phosphorylation site [posttranslational modification] 994484002637 intermolecular recognition site; other site 994484002638 dimerization interface [polypeptide binding]; other site 994484002639 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484002640 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484002641 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 994484002642 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 994484002643 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484002644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484002645 DNA-binding site [nucleotide binding]; DNA binding site 994484002646 FCD domain; Region: FCD; cl11656 994484002647 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 994484002648 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484002649 putative active site [active] 994484002650 catalytic residue [active] 994484002651 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 994484002652 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484002653 NAD(P) binding site [chemical binding]; other site 994484002654 catalytic residues [active] 994484002655 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 994484002656 D-galactonate transporter; Region: 2A0114; TIGR00893 994484002657 putative substrate translocation pore; other site 994484002658 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 994484002659 galactarate dehydratase; Region: galactar-dH20; TIGR03248 994484002660 SAF domain; Region: SAF; cl00555 994484002661 SAF domain; Region: SAF; cl00555 994484002662 Membrane transport protein; Region: Mem_trans; cl09117 994484002663 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484002664 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 994484002665 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 994484002666 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 994484002667 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 994484002668 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 994484002669 GatB domain; Region: GatB_Yqey; cl11497 994484002670 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 994484002671 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; cl11426 994484002672 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 994484002673 rod shape-determining protein MreB; Provisional; Region: PRK13927 994484002674 Cell division protein FtsA; Region: FtsA; cl11496 994484002675 rod shape-determining protein MreC; Provisional; Region: PRK13922 994484002676 rod shape-determining protein MreC; Region: MreC; pfam04085 994484002677 rod shape-determining protein MreD; Region: MreD; cl01087 994484002678 Maf-like protein; Region: Maf; pfam02545 994484002679 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 994484002680 active site 994484002681 dimer interface [polypeptide binding]; other site 994484002682 ribonuclease G; Provisional; Region: PRK11712 994484002683 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 994484002684 homodimer interface [polypeptide binding]; other site 994484002685 oligonucleotide binding site [chemical binding]; other site 994484002686 TIGR02099 family protein; Region: TIGR02099 994484002687 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484002688 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 994484002689 putative active site [active] 994484002690 catalytic triad [active] 994484002691 dimer interface [polypeptide binding]; other site 994484002692 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 994484002693 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 994484002694 Protein of unknown function (DUF615); Region: DUF615; cl01147 994484002695 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 994484002696 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 994484002697 fumarate hydratase; Reviewed; Region: fumC; PRK00485 994484002698 Class II fumarases; Region: Fumarase_classII; cd01362 994484002699 active site 994484002700 tetramer interface [polypeptide binding]; other site 994484002701 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 994484002702 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 994484002703 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 994484002704 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 994484002705 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 994484002706 dimerization domain swap beta strand [polypeptide binding]; other site 994484002707 regulatory protein interface [polypeptide binding]; other site 994484002708 active site 994484002709 regulatory phosphorylation site [posttranslational modification]; other site 994484002710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484002711 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 994484002712 active site 994484002713 phosphorylation site [posttranslational modification] 994484002714 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 994484002715 30S subunit binding site; other site 994484002716 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 994484002717 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 994484002718 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 994484002719 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 994484002720 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 994484002721 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 994484002722 Walker A/P-loop; other site 994484002723 ATP binding site [chemical binding]; other site 994484002724 Q-loop/lid; other site 994484002725 ABC transporter signature motif; other site 994484002726 Walker B; other site 994484002727 D-loop; other site 994484002728 H-loop/switch region; other site 994484002729 OstA-like protein; Region: OstA; cl00844 994484002730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 994484002731 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 994484002732 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; cl11391 994484002733 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 994484002734 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 5-...; Region: SIS_Kpsf; cd05014 994484002735 putative active site [active] 994484002736 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 994484002737 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 994484002738 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 994484002739 Walker A/P-loop; other site 994484002740 ATP binding site [chemical binding]; other site 994484002741 Q-loop/lid; other site 994484002742 ABC transporter signature motif; other site 994484002743 Walker B; other site 994484002744 D-loop; other site 994484002745 H-loop/switch region; other site 994484002746 Domain of unknown function DUF140; Region: DUF140; cl00510 994484002747 mce related protein; Region: MCE; pfam02470 994484002748 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 994484002749 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 994484002750 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 994484002751 anti sigma factor interaction site; other site 994484002752 regulatory phosphorylation site [posttranslational modification]; other site 994484002753 BolA-like protein; Region: BolA; cl00386 994484002754 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 994484002755 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 994484002756 hinge; other site 994484002757 active site 994484002758 ATP phosphoribosyltransferase; Region: HisG; cl15266 994484002759 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 994484002760 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 994484002761 NAD binding site [chemical binding]; other site 994484002762 dimerization interface [polypeptide binding]; other site 994484002763 product binding site; other site 994484002764 substrate binding site [chemical binding]; other site 994484002765 zinc binding site [ion binding]; other site 994484002766 catalytic residues [active] 994484002767 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 994484002768 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 994484002769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484002770 homodimer interface [polypeptide binding]; other site 994484002771 catalytic residue [active] 994484002772 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484002773 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002774 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484002775 Peptidase family M48; Region: Peptidase_M48; cl12018 994484002776 Predicted membrane protein [Function unknown]; Region: COG2119 994484002777 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 994484002778 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 994484002779 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 994484002780 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 994484002781 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 994484002782 S-adenosylmethionine binding site [chemical binding]; other site 994484002783 glycerate dehydrogenase; Provisional; Region: PRK06487 994484002784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002785 LysE type translocator; Region: LysE; cl00565 994484002786 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 994484002787 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484002788 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484002789 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484002790 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 994484002791 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...; Region: LuxR_C_like; cd06170 994484002792 DNA binding residues [nucleotide binding] 994484002793 dimerization interface [polypeptide binding]; other site 994484002794 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 994484002795 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 994484002796 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 994484002797 DNA binding site [nucleotide binding] 994484002798 active site 994484002799 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484002800 metal binding site [ion binding]; metal-binding site 994484002801 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484002802 putative active site [active] 994484002803 putative metal binding site [ion binding]; other site 994484002804 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 994484002805 DctM-like transporters; Region: DctM; pfam06808 994484002806 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; cl09110 994484002807 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 994484002808 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 994484002809 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved...; Region: MR_like_4; cd03329 994484002810 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 994484002811 putative active site pocket [active] 994484002812 metal binding site [ion binding]; metal-binding site 994484002813 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 994484002814 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484002815 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484002816 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002817 dimer interface [polypeptide binding]; other site 994484002818 conserved gate region; other site 994484002819 putative PBP binding loops; other site 994484002820 ABC-ATPase subunit interface; other site 994484002821 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 994484002822 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484002823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484002824 dimer interface [polypeptide binding]; other site 994484002825 conserved gate region; other site 994484002826 ABC-ATPase subunit interface; other site 994484002827 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 994484002828 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 994484002829 Walker A/P-loop; other site 994484002830 ATP binding site [chemical binding]; other site 994484002831 Q-loop/lid; other site 994484002832 ABC transporter signature motif; other site 994484002833 Walker B; other site 994484002834 D-loop; other site 994484002835 H-loop/switch region; other site 994484002836 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 994484002837 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 994484002838 Walker A/P-loop; other site 994484002839 ATP binding site [chemical binding]; other site 994484002840 Q-loop/lid; other site 994484002841 ABC transporter signature motif; other site 994484002842 Walker B; other site 994484002843 D-loop; other site 994484002844 H-loop/switch region; other site 994484002845 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 994484002846 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484002847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484002848 DNA-binding site [nucleotide binding]; DNA binding site 994484002849 FCD domain; Region: FCD; cl11656 994484002850 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484002851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484002852 DNA-binding site [nucleotide binding]; DNA binding site 994484002853 FCD domain; Region: FCD; cl11656 994484002854 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 994484002855 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 994484002856 dimer interface [polypeptide binding]; other site 994484002857 metal binding site [ion binding]; metal-binding site 994484002858 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484002859 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 994484002860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484002861 Coenzyme A binding pocket [chemical binding]; other site 994484002862 Protein of unknown function, DUF488; Region: DUF488; cl01246 994484002863 Response regulator receiver domain; Region: Response_reg; pfam00072 994484002864 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 994484002865 active site 994484002866 phosphorylation site [posttranslational modification] 994484002867 intermolecular recognition site; other site 994484002868 dimerization interface [polypeptide binding]; other site 994484002869 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484002870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484002871 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 994484002872 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 994484002873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484002874 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 trans-...; Region: HisKA; cd00082 994484002875 dimer interface [polypeptide binding]; other site 994484002876 phosphorylation site [posttranslational modification] 994484002877 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 994484002878 ATP binding site [chemical binding]; other site 994484002879 Mg2+ binding site [ion binding]; other site 994484002880 G-X-G motif; other site 994484002881 Response regulator receiver domain; Region: Response_reg; pfam00072 994484002882 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 994484002883 active site 994484002884 phosphorylation site [posttranslational modification] 994484002885 intermolecular recognition site; other site 994484002886 dimerization interface [polypeptide binding]; other site 994484002887 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 994484002888 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 994484002889 N-terminal plug; other site 994484002890 ligand-binding site [chemical binding]; other site 994484002891 PAS domain S-box; Region: sensory_box; TIGR00229 994484002892 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 994484002893 putative active site [active] 994484002894 heme pocket [chemical binding]; other site 994484002895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484002896 metal binding site [ion binding]; metal-binding site 994484002897 active site 994484002898 I-site; other site 994484002899 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484002900 putative active site [active] 994484002901 putative metal binding site [ion binding]; other site 994484002902 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484002903 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 994484002904 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 994484002905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484002906 Domain of unknown function (DUF927); Region: DUF927; cl12098 994484002907 Domain of unknown function (DUF927); Region: DUF927; cl12098 994484002908 Low molecular weight phosphatase family; Region: LMWPc; cl00105 994484002909 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 994484002910 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 994484002911 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 994484002912 Preprotein translocase subunit; Region: YajC; cl00806 994484002913 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 994484002914 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 994484002915 Protein export membrane protein; Region: SecD_SecF; cl14618 994484002916 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 994484002917 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 994484002918 Protein export membrane protein; Region: SecD_SecF; cl14618 994484002919 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 994484002920 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 994484002921 active site 994484002922 dimerization interface [polypeptide binding]; other site 994484002923 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 994484002924 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 994484002925 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 994484002926 serine O-acetyltransferase; Region: cysE; TIGR01172 994484002927 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 L-...; Region: LbH_SAT; cd03354 994484002928 trimer interface [polypeptide binding]; other site 994484002929 active site 994484002930 substrate binding site [chemical binding]; other site 994484002931 CoA binding site [chemical binding]; other site 994484002932 Predicted transcriptional regulator [Transcription]; Region: COG1959 994484002933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484002934 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 994484002935 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 994484002936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484002937 catalytic residue [active] 994484002938 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 994484002939 trimerization site [polypeptide binding]; other site 994484002940 active site 994484002941 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 994484002942 co-chaperone HscB; Provisional; Region: hscB; PRK00294 994484002943 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...; Region: DnaJ; cl02542 994484002944 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 994484002945 chaperone protein HscA; Provisional; Region: hscA; PRK05183 994484002946 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 994484002947 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 994484002948 catalytic loop [active] 994484002949 iron binding site [ion binding]; other site 994484002950 Protein of unknown function (DUF528); Region: DUF528; cl01123 994484002951 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 994484002952 active site 994484002953 multimer interface [polypeptide binding]; other site 994484002954 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 994484002955 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 994484002956 FeS/SAM binding site; other site 994484002957 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 994484002958 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 994484002959 binding surface 994484002960 TPR motif; other site 994484002961 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 994484002962 binding surface 994484002963 TPR motif; other site 994484002964 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 994484002965 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484002966 cytoskeletal protein RodZ; Provisional; Region: PRK10856 994484002967 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 994484002968 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 994484002969 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 994484002970 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 994484002971 dimer interface [polypeptide binding]; other site 994484002972 motif 1; other site 994484002973 active site 994484002974 motif 2; other site 994484002975 motif 3; other site 994484002976 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 994484002977 anticodon binding site; other site 994484002978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 994484002979 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 994484002980 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 994484002981 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 994484002982 Trp docking motif; other site 994484002983 active site 994484002984 GTP-binding protein Der; Reviewed; Region: PRK00093 994484002985 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 994484002986 G1 box; other site 994484002987 GTP/Mg2+ binding site [chemical binding]; other site 994484002988 Switch I region; other site 994484002989 G2 box; other site 994484002990 Switch II region; other site 994484002991 G3 box; other site 994484002992 G4 box; other site 994484002993 G5 box; other site 994484002994 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 994484002995 G1 box; other site 994484002996 GTP/Mg2+ binding site [chemical binding]; other site 994484002997 Switch I region; other site 994484002998 G2 box; other site 994484002999 G3 box; other site 994484003000 Switch II region; other site 994484003001 G4 box; other site 994484003002 G5 box; other site 994484003003 methionine aminotransferase; Validated; Region: PRK09082 994484003004 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 994484003005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003006 homodimer interface [polypeptide binding]; other site 994484003007 catalytic residue [active] 994484003008 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 994484003009 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484003010 putative active site [active] 994484003011 catalytic triad [active] 994484003012 multimer interface [polypeptide binding]; other site 994484003013 dimer interface [polypeptide binding]; other site 994484003014 2-isopropylmalate synthase; Validated; Region: PRK03739 994484003015 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 994484003016 active site 994484003017 catalytic residues [active] 994484003018 metal binding site [ion binding]; metal-binding site 994484003019 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 994484003020 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484003021 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 994484003022 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 994484003023 generic binding surface II; other site 994484003024 generic binding surface I; other site 994484003025 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484003026 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 994484003027 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 994484003028 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 994484003029 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...; Region: IMPDH; cd00381 994484003030 active site 994484003031 GMP synthase; Reviewed; Region: guaA; PRK00074 994484003032 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 994484003033 AMP/PPi binding site [chemical binding]; other site 994484003034 candidate oxyanion hole; other site 994484003035 catalytic triad [active] 994484003036 potential glutamine specificity residues [chemical binding]; other site 994484003037 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 994484003038 ATP Binding subdomain [chemical binding]; other site 994484003039 Ligand Binding sites [chemical binding]; other site 994484003040 Dimerization subdomain; other site 994484003041 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 994484003042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484003043 DNA-binding site [nucleotide binding]; DNA binding site 994484003044 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 994484003045 UTRA domain; Region: UTRA; cl01230 994484003046 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 994484003047 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 994484003048 active site turn [active] 994484003049 phosphorylation site [posttranslational modification] 994484003050 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 994484003051 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 994484003052 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484003053 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel beta-...; Region: Maltoporin-like; cd01346 994484003054 trimer interface; other site 994484003055 sugar binding site [chemical binding]; other site 994484003056 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 994484003057 HPr interaction site; other site 994484003058 glycerol kinase (GK) interaction site [polypeptide binding]; other site 994484003059 active site 994484003060 phosphorylation site [posttranslational modification] 994484003061 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 994484003062 dimerization domain swap beta strand [polypeptide binding]; other site 994484003063 regulatory protein interface [polypeptide binding]; other site 994484003064 active site 994484003065 regulatory phosphorylation site [posttranslational modification]; other site 994484003066 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 994484003067 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484003068 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 994484003069 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 994484003070 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 994484003071 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cl00164 994484003072 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 994484003073 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484003074 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484003075 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 994484003076 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484003077 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003078 active site 994484003079 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484003080 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484003081 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003082 active site 994484003083 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 994484003084 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484003085 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 994484003086 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 994484003087 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484003088 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 994484003089 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 994484003090 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 994484003091 putative active site [active] 994484003092 putative metal binding site [ion binding]; other site 994484003093 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 994484003094 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 994484003095 substrate binding site [chemical binding]; other site 994484003096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484003097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484003098 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 994484003099 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 994484003100 putative substrate translocation pore; other site 994484003101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003102 FCD domain; Region: FCD; cl11656 994484003103 peptide synthase; Provisional; Region: PRK12467 994484003104 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484003105 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484003106 Nitroreductase-like family 2. 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_2; cd02138 994484003107 putative FMN binding site [chemical binding]; other site 994484003108 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003109 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484003110 active site 994484003111 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 994484003112 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 994484003113 TPR motif; other site 994484003114 binding surface 994484003115 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 994484003116 binding surface 994484003117 TPR motif; other site 994484003118 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 994484003119 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 994484003120 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484003121 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484003122 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 994484003123 nucleoside/Zn binding site; other site 994484003124 dimer interface [polypeptide binding]; other site 994484003125 catalytic motif [active] 994484003126 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 994484003127 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 994484003128 S-adenosylmethionine binding site [chemical binding]; other site 994484003129 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 994484003130 S-adenosylmethionine binding site [chemical binding]; other site 994484003131 YhhN-like protein; Region: YhhN; cl01505 994484003132 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 994484003133 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 994484003134 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...; Region: AAA; cd00009 994484003135 Walker A motif; other site 994484003136 ATP binding site [chemical binding]; other site 994484003137 Walker B motif; other site 994484003138 arginine finger; other site 994484003139 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484003140 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 994484003141 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484003142 putative substrate translocation pore; other site 994484003143 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 994484003144 Domain of unknown function DUF21; Region: DUF21; pfam01595 994484003145 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 994484003146 Transporter associated domain; Region: CorC_HlyC; cl08393 994484003147 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 994484003148 signal recognition particle protein; Provisional; Region: PRK10867 994484003149 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 994484003150 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 994484003151 P loop; other site 994484003152 GTP binding site [chemical binding]; other site 994484003153 Signal peptide binding domain; Region: SRP_SPB; pfam02978 994484003154 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 994484003155 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 994484003156 RimM N-terminal domain; Region: RimM; pfam01782 994484003157 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...; Region: PRCH; cl09959 994484003158 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 994484003159 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 994484003160 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 994484003161 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 994484003162 Int/Topo IB signature motif; other site 994484003163 active site 994484003164 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide...; Region: DsbA_DsbC_DsbG; cd03020 994484003165 dimerization domain [polypeptide binding]; other site 994484003166 dimer interface [polypeptide binding]; other site 994484003167 catalytic residues [active] 994484003168 homoserine dehydrogenase; Provisional; Region: PRK06349 994484003169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484003170 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 994484003171 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 994484003172 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 994484003173 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants...; Region: Thr-synth_2; cd01560 994484003174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003175 catalytic residue [active] 994484003176 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484003177 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...; Region: PBPb; cd00134 994484003178 substrate binding pocket [chemical binding]; other site 994484003179 membrane-bound complex binding site; other site 994484003180 hinge residues; other site 994484003181 hypothetical protein; Provisional; Region: PRK13560 994484003182 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 994484003183 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 994484003184 CoA-transferase family III; Region: CoA_transf_3; cl00778 994484003185 YaeQ protein; Region: YaeQ; cl01913 994484003186 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 994484003187 DHH family; Region: DHH; pfam01368 994484003188 DHHA1 domain; Region: DHHA1; pfam02272 994484003189 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484003190 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 994484003191 active site 994484003192 FMN binding site [chemical binding]; other site 994484003193 substrate binding site [chemical binding]; other site 994484003194 homotetramer interface [polypeptide binding]; other site 994484003195 catalytic residue [active] 994484003196 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 994484003197 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 994484003198 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484003199 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 994484003200 tetrameric interface [polypeptide binding]; other site 994484003201 NAD binding site [chemical binding]; other site 994484003202 catalytic residues [active] 994484003203 substrate binding site [chemical binding]; other site 994484003204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484003205 dimer interface [polypeptide binding]; other site 994484003206 conserved gate region; other site 994484003207 ABC-ATPase subunit interface; other site 994484003208 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484003209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484003210 conserved gate region; other site 994484003211 dimer interface [polypeptide binding]; other site 994484003212 putative PBP binding loops; other site 994484003213 ABC-ATPase subunit interface; other site 994484003214 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484003215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484003216 Walker A/P-loop; other site 994484003217 ATP binding site [chemical binding]; other site 994484003218 Q-loop/lid; other site 994484003219 ABC transporter signature motif; other site 994484003220 Walker B; other site 994484003221 D-loop; other site 994484003222 H-loop/switch region; other site 994484003223 TOBE domain; Region: TOBE_2; cl01440 994484003224 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 994484003225 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484003226 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 994484003227 tetrameric interface [polypeptide binding]; other site 994484003228 NAD binding site [chemical binding]; other site 994484003229 catalytic residues [active] 994484003230 substrate binding site [chemical binding]; other site 994484003231 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484003232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003233 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 994484003234 putative substrate binding pocket [chemical binding]; other site 994484003235 dimerization interface [polypeptide binding]; other site 994484003236 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 994484003237 putative metal binding site [ion binding]; other site 994484003238 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484003239 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484003240 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484003241 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484003242 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484003243 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484003244 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 994484003245 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; cl12011 994484003246 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484003247 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484003248 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 994484003249 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 994484003250 ATP binding site [chemical binding]; other site 994484003251 Mg2+ binding site [ion binding]; other site 994484003252 G-X-G motif; other site 994484003253 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 994484003254 Response regulator receiver domain; Region: Response_reg; pfam00072 994484003255 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 994484003256 active site 994484003257 phosphorylation site [posttranslational modification] 994484003258 intermolecular recognition site; other site 994484003259 dimerization interface [polypeptide binding]; other site 994484003260 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 994484003261 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 994484003262 active site 994484003263 phosphorylation site [posttranslational modification] 994484003264 intermolecular recognition site; other site 994484003265 dimerization interface [polypeptide binding]; other site 994484003266 CheB methylesterase; Region: CheB_methylest; pfam01339 994484003267 Response regulator receiver domain; Region: Response_reg; pfam00072 994484003268 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 994484003269 active site 994484003270 phosphorylation site [posttranslational modification] 994484003271 intermolecular recognition site; other site 994484003272 dimerization interface [polypeptide binding]; other site 994484003273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484003274 metal binding site [ion binding]; metal-binding site 994484003275 active site 994484003276 I-site; other site 994484003277 peptide chain release factor 2; Provisional; Region: PRK08787 994484003278 RF-1 domain; Region: RF-1; cl02875 994484003279 RF-1 domain; Region: RF-1; cl02875 994484003280 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 994484003281 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 994484003282 dimer interface [polypeptide binding]; other site 994484003283 putative anticodon binding site; other site 994484003284 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 994484003285 motif 1; other site 994484003286 active site 994484003287 motif 2; other site 994484003288 motif 3; other site 994484003289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 994484003290 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 994484003291 conserved hypothetical protein; Region: QEGLA; TIGR02421 994484003292 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 994484003293 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484003294 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 994484003295 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484003296 ligand binding site [chemical binding]; other site 994484003297 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 994484003298 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 994484003299 adenylate kinase; Reviewed; Region: adk; PRK00279 994484003300 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 994484003301 AMP-binding site [chemical binding]; other site 994484003302 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 994484003303 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 994484003304 Protein of unknown function DUF72; Region: DUF72; cl00777 994484003305 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 994484003306 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 994484003307 tetramer interface [polypeptide binding]; other site 994484003308 active site 994484003309 Mg2+/Mn2+ binding site [ion binding]; other site 994484003310 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 994484003311 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; cl12011 994484003312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484003313 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484003314 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484003315 putative membrane fusion protein; Region: TIGR02828 994484003316 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 994484003317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 994484003318 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 994484003319 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 994484003320 putative acyl-acceptor binding pocket; other site 994484003321 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 994484003322 DNA-binding site [nucleotide binding]; DNA binding site 994484003323 RNA-binding motif; other site 994484003324 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 994484003325 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 994484003326 S-adenosylmethionine binding site [chemical binding]; other site 994484003327 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 994484003328 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 994484003329 metal binding site [ion binding]; metal-binding site 994484003330 dimer interface [polypeptide binding]; other site 994484003331 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 994484003332 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-...; Region: YgdL_like; cd00755 994484003333 putative ATP binding site [chemical binding]; other site 994484003334 putative substrate interface [chemical binding]; other site 994484003335 Fe-S metabolism associated domain; Region: SufE; cl00951 994484003336 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 994484003337 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 994484003338 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484003339 catalytic residue [active] 994484003340 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 994484003341 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 994484003342 putative trimer interface [polypeptide binding]; other site 994484003343 putative CoA binding site [chemical binding]; other site 994484003344 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 994484003345 putative catalytic residues [active] 994484003346 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 994484003347 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 994484003348 hypothetical protein; Validated; Region: PRK07682 994484003349 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 994484003350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003351 homodimer interface [polypeptide binding]; other site 994484003352 catalytic residue [active] 994484003353 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 994484003354 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484003355 metal binding triad; other site 994484003356 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 994484003357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484003358 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 994484003359 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 994484003360 methionine aminopeptidase; Reviewed; Region: PRK07281 994484003361 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 994484003362 active site 994484003363 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 994484003364 rRNA interaction site [nucleotide binding]; other site 994484003365 S8 interaction site; other site 994484003366 putative laminin-1 binding site; other site 994484003367 elongation factor Ts; Provisional; Region: tsf; PRK09377 994484003368 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 994484003369 Elongation factor TS; Region: EF_TS; pfam00889 994484003370 Elongation factor TS; Region: EF_TS; pfam00889 994484003371 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 994484003372 putative nucleotide binding site [chemical binding]; other site 994484003373 uridine monophosphate binding site [chemical binding]; other site 994484003374 homohexameric interface [polypeptide binding]; other site 994484003375 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 994484003376 hinge region; other site 994484003377 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 994484003378 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 994484003379 catalytic residue [active] 994484003380 putative FPP diphosphate binding site; other site 994484003381 putative FPP binding hydrophobic cleft; other site 994484003382 dimer interface [polypeptide binding]; other site 994484003383 putative IPP diphosphate binding site; other site 994484003384 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 994484003385 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 994484003386 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 994484003387 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 994484003388 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 994484003389 zinc metallopeptidase RseP; Provisional; Region: PRK10779 994484003390 active site 994484003391 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...; Region: PDZ_metalloprotease; cd00989 994484003392 protein binding site [polypeptide binding]; other site 994484003393 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...; Region: PDZ_metalloprotease; cd00989 994484003394 protein binding site [polypeptide binding]; other site 994484003395 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 994484003396 putative substrate binding region [chemical binding]; other site 994484003397 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 994484003398 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484003399 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484003400 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484003401 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484003402 Surface antigen; Region: Bac_surface_Ag; cl03097 994484003403 periplasmic chaperone; Provisional; Region: PRK10780 994484003404 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 994484003405 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 994484003406 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 994484003407 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-2,3-...; Region: LbH_LpxD; cd03352 994484003408 trimer interface [polypeptide binding]; other site 994484003409 active site 994484003410 UDP-GlcNAc binding site [chemical binding]; other site 994484003411 lipid binding site [chemical binding]; lipid-binding site 994484003412 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 994484003413 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 994484003414 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 994484003415 active site 994484003416 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 994484003417 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 994484003418 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 994484003419 RNA/DNA hybrid binding site [nucleotide binding]; other site 994484003420 active site 994484003421 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 994484003422 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 994484003423 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 994484003424 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...; Region: DnaE_OBF; cd04485 994484003425 generic binding surface II; other site 994484003426 generic binding surface I; other site 994484003427 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484003428 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 994484003429 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 994484003430 Ligand Binding Site [chemical binding]; other site 994484003431 TilS substrate binding domain; Region: TilS; pfam09179 994484003432 B3/4 domain; Region: B3_4; cl11458 994484003433 CTP synthetase; Validated; Region: pyrG; PRK05380 994484003434 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...; Region: CTGs; cd03113 994484003435 Catalytic site [active] 994484003436 Active site [active] 994484003437 UTP binding site [chemical binding]; other site 994484003438 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 994484003439 active site 994484003440 putative oxyanion hole; other site 994484003441 catalytic triad [active] 994484003442 NeuB family; Region: NeuB; cl00496 994484003443 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 994484003444 enolase; Provisional; Region: eno; PRK00077 994484003445 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 994484003446 dimer interface [polypeptide binding]; other site 994484003447 metal binding site [ion binding]; metal-binding site 994484003448 substrate binding pocket [chemical binding]; other site 994484003449 Septum formation initiator; Region: DivIC; cl11433 994484003450 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 994484003451 substrate binding site [chemical binding]; other site 994484003452 dimer interface [polypeptide binding]; other site 994484003453 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484003454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003455 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 994484003456 putative effector binding pocket; other site 994484003457 putative dimerization interface [polypeptide binding]; other site 994484003458 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 994484003459 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 994484003460 substrate binding site [chemical binding]; other site 994484003461 catalytic Zn binding site [ion binding]; other site 994484003462 NAD binding site [chemical binding]; other site 994484003463 structural Zn binding site [ion binding]; other site 994484003464 dimer interface [polypeptide binding]; other site 994484003465 Predicted esterase [General function prediction only]; Region: COG0627 994484003466 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 994484003467 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...; Region: MECDP_synthase; cd00554 994484003468 homotrimer interaction site [polypeptide binding]; other site 994484003469 zinc binding site [ion binding]; other site 994484003470 CDP-binding sites; other site 994484003471 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 994484003472 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 994484003473 Permutation of conserved domain; other site 994484003474 active site 994484003475 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 994484003476 Survival protein SurE; Region: SurE; cl00448 994484003477 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; cl12011 994484003478 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484003479 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 994484003480 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 994484003481 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484003482 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 994484003483 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484003484 Ferredoxin [Energy production and conversion]; Region: COG1146 994484003485 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 994484003486 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 994484003487 MutS domain I; Region: MutS_I; pfam01624 994484003488 MutS domain II; Region: MutS_II; pfam05188 994484003489 MutS family domain IV; Region: MutS_IV; pfam05190 994484003490 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 994484003491 Walker A/P-loop; other site 994484003492 ATP binding site [chemical binding]; other site 994484003493 Q-loop/lid; other site 994484003494 ABC transporter signature motif; other site 994484003495 Walker B; other site 994484003496 D-loop; other site 994484003497 H-loop/switch region; other site 994484003498 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 994484003499 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 994484003500 non-specific DNA binding site [nucleotide binding]; other site 994484003501 salt bridge; other site 994484003502 sequence-specific DNA binding site [nucleotide binding]; other site 994484003503 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 (...; Region: S24_LexA-like; cd06529 994484003504 Catalytic site [active] 994484003505 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 994484003506 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 994484003507 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 994484003508 Phage tail tube protein; Region: Tail_tube; pfam10618 994484003509 Phage tail protein E; Region: Phage_E; pfam06158 994484003510 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 994484003511 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 994484003512 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 994484003513 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484003514 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484003515 Phage protein GP46; Region: GP46; cl01814 994484003516 Baseplate J-like protein; Region: Baseplate_J; cl01294 994484003517 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 994484003518 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 994484003519 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 994484003520 catalytic residue [active] 994484003521 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 994484003522 Competence-damaged protein; Region: CinA; cl00666 994484003523 recombinase A; Provisional; Region: recA; PRK09354 994484003524 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 994484003525 hexamer interface [polypeptide binding]; other site 994484003526 Walker A motif; other site 994484003527 ATP binding site [chemical binding]; other site 994484003528 Walker B motif; other site 994484003529 RecX family; Region: RecX; cl00936 994484003530 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 994484003531 DTW domain; Region: DTW; cl01221 994484003532 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484003533 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 994484003534 active site 994484003535 phosphorylation site [posttranslational modification] 994484003536 intermolecular recognition site; other site 994484003537 dimerization interface [polypeptide binding]; other site 994484003538 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...; Region: LuxR_C_like; cd06170 994484003539 DNA binding residues [nucleotide binding] 994484003540 dimerization interface [polypeptide binding]; other site 994484003541 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 994484003542 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 994484003543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003544 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 994484003545 putative dimerization interface [polypeptide binding]; other site 994484003546 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484003547 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 994484003548 FAD binding pocket [chemical binding]; other site 994484003549 FAD binding motif [chemical binding]; other site 994484003550 phosphate binding motif [ion binding]; other site 994484003551 beta-alpha-beta structure motif; other site 994484003552 NAD binding pocket [chemical binding]; other site 994484003553 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 994484003554 homodimer interaction site [polypeptide binding]; other site 994484003555 cofactor binding site; other site 994484003556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 994484003557 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 994484003558 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 994484003559 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 994484003560 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 994484003561 RNA binding surface [nucleotide binding]; other site 994484003562 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 994484003563 active site 994484003564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484003565 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 994484003566 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 994484003567 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 994484003568 FeS/SAM binding site; other site 994484003569 K+ potassium transporter; Region: K_trans; cl01227 994484003570 potassium uptake protein; Region: kup; TIGR00794 994484003571 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 994484003572 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 994484003573 Predicted integral membrane protein [Function unknown]; Region: COG0392 994484003574 Uncharacterized conserved protein [Function unknown]; Region: COG2898 994484003575 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 994484003576 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 994484003577 active site 994484003578 DNA polymerase IV; Validated; Region: PRK02406 994484003579 DNA binding site [nucleotide binding] 994484003580 prolyl-tRNA synthetase; Provisional; Region: PRK09194 994484003581 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...; Region: ProRS_core_prok; cd00779 994484003582 dimer interface [polypeptide binding]; other site 994484003583 motif 1; other site 994484003584 active site 994484003585 motif 2; other site 994484003586 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 994484003587 putative deacylase active site [active] 994484003588 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 994484003589 active site 994484003590 motif 3; other site 994484003591 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-...; Region: ProRS_anticodon_short; cd00861 994484003592 anticodon binding site; other site 994484003593 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; cl11420 994484003594 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; cl11420 994484003595 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 994484003596 active site 994484003597 DNA binding site [nucleotide binding] 994484003598 Protein of unknown function, DUF481; Region: DUF481; cl01213 994484003599 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 994484003600 DNA-binding site [nucleotide binding]; DNA binding site 994484003601 RNA-binding motif; other site 994484003602 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 994484003603 trimer interface [polypeptide binding]; other site 994484003604 active site 994484003605 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 994484003606 putative active site [active] 994484003607 putative metal binding site [ion binding]; other site 994484003608 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 994484003609 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 994484003610 ATP binding site [chemical binding]; other site 994484003611 putative Mg++ binding site [ion binding]; other site 994484003612 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 994484003613 nucleotide binding region [chemical binding]; other site 994484003614 ATP-binding site [chemical binding]; other site 994484003615 DEAD/H associated; Region: DEAD_assoc; pfam08494 994484003616 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484003617 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484003618 Walker A/P-loop; other site 994484003619 ATP binding site [chemical binding]; other site 994484003620 Q-loop/lid; other site 994484003621 ABC transporter signature motif; other site 994484003622 Walker B; other site 994484003623 D-loop; other site 994484003624 H-loop/switch region; other site 994484003625 An uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the the M14 family of metallocarboxypeptidases. This subgroup includes Pseudomonas aeruginosa AotO and related proteins. ASTE...; Region: M14_PaAOTO_like; cd06250 994484003626 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 994484003627 putative active site [active] 994484003628 Zn-binding site [ion binding]; other site 994484003629 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484003630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484003631 dimer interface [polypeptide binding]; other site 994484003632 conserved gate region; other site 994484003633 putative PBP binding loops; other site 994484003634 ABC-ATPase subunit interface; other site 994484003635 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484003636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484003637 dimer interface [polypeptide binding]; other site 994484003638 conserved gate region; other site 994484003639 putative PBP binding loops; other site 994484003640 ABC-ATPase subunit interface; other site 994484003641 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484003642 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...; Region: PBPb; cd00134 994484003643 substrate binding pocket [chemical binding]; other site 994484003644 membrane-bound complex binding site; other site 994484003645 hinge residues; other site 994484003646 ATP-dependent DNA ligase; Validated; Region: PRK09247 994484003647 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 994484003648 active site 994484003649 DNA binding site [nucleotide binding] 994484003650 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 994484003651 DNA binding site [nucleotide binding] 994484003652 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 994484003653 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484003654 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 994484003655 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 7-...; Region: Ntn_PGA_like; cd03747 994484003656 active site 994484003657 Isochorismatase family; Region: Isochorismatase; pfam00857 994484003658 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 994484003659 catalytic triad [active] 994484003660 conserved cis-peptide bond; other site 994484003661 Late embryogenesis abundant protein; Region: LEA_2; cl12118 994484003662 SEC-C motif; Region: SEC-C; cl12132 994484003663 SEC-C motif; Region: SEC-C; cl12132 994484003664 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484003665 ligand binding site [chemical binding]; other site 994484003666 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484003667 ligand binding site [chemical binding]; other site 994484003668 Copper resistance protein D; Region: CopD; cl00563 994484003669 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 994484003670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484003671 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484003672 Beta-lactamase; Region: Beta-lactamase; cl01009 994484003673 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484003674 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484003675 ligand binding site [chemical binding]; other site 994484003676 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 994484003677 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484003678 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 994484003679 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 994484003680 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 994484003681 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 994484003682 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 994484003683 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484003684 catalytic residue [active] 994484003685 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 994484003686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484003687 Predicted membrane protein [Function unknown]; Region: COG3650 994484003688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484003689 NAD(P) binding site [chemical binding]; other site 994484003690 active site 994484003691 transcriptional regulator; Provisional; Region: PRK10632 994484003692 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003693 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 994484003694 putative effector binding pocket; other site 994484003695 dimerization interface [polypeptide binding]; other site 994484003696 DoxX; Region: DoxX; cl00976 994484003697 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 994484003698 hypothetical protein; Provisional; Region: PRK05409 994484003699 Protein of unknown function (DUF692); Region: DUF692; cl01263 994484003700 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 994484003701 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 994484003702 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 994484003703 Walker A/P-loop; other site 994484003704 ATP binding site [chemical binding]; other site 994484003705 Q-loop/lid; other site 994484003706 ABC transporter signature motif; other site 994484003707 Walker B; other site 994484003708 D-loop; other site 994484003709 H-loop/switch region; other site 994484003710 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 994484003711 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 994484003712 Walker A/P-loop; other site 994484003713 ATP binding site [chemical binding]; other site 994484003714 Q-loop/lid; other site 994484003715 ABC transporter signature motif; other site 994484003716 Walker B; other site 994484003717 D-loop; other site 994484003718 H-loop/switch region; other site 994484003719 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 994484003720 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 994484003721 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 994484003722 TM-ABC transporter signature motif; other site 994484003723 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 994484003724 TM-ABC transporter signature motif; other site 994484003725 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484003726 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 994484003727 dimerization interface [polypeptide binding]; other site 994484003728 ligand binding site [chemical binding]; other site 994484003729 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 994484003730 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 994484003731 putative substrate translocation pore; other site 994484003732 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484003733 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 994484003734 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484003735 putative substrate translocation pore; other site 994484003736 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 994484003737 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 994484003738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484003739 Cupin domain; Region: Cupin_2; cl09118 994484003740 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 994484003741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484003742 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 994484003743 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 994484003744 putative substrate binding site [chemical binding]; other site 994484003745 nucleotide binding site [chemical binding]; other site 994484003746 nucleotide binding site [chemical binding]; other site 994484003747 homodimer interface [polypeptide binding]; other site 994484003748 ornithine carbamoyltransferase; Validated; Region: PRK02102 994484003749 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 994484003750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484003751 Amidinotransferase; Region: Amidinotransf; cl12043 994484003752 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 994484003753 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484003754 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484003755 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484003756 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484003757 CoA-transferase family III; Region: CoA_transf_3; cl00778 994484003758 Protein of unknown function (DUF454); Region: DUF454; cl01063 994484003759 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 994484003760 heme binding pocket [chemical binding]; other site 994484003761 heme ligand [chemical binding]; other site 994484003762 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484003763 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 994484003764 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 994484003765 N-terminal plug; other site 994484003766 ligand-binding site [chemical binding]; other site 994484003767 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484003768 FecR protein; Region: FecR; pfam04773 994484003769 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 994484003770 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484003771 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484003772 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 994484003773 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 994484003774 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484003775 Dehydratase family; Region: ILVD_EDD; cl00340 994484003776 6-phosphogluconate dehydratase; Region: edd; TIGR01196 994484003777 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 994484003778 osmolarity response regulator; Provisional; Region: ompR; PRK09468 994484003779 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 994484003780 active site 994484003781 phosphorylation site [posttranslational modification] 994484003782 intermolecular recognition site; other site 994484003783 dimerization interface [polypeptide binding]; other site 994484003784 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...; Region: trans_reg_C; cd00383 994484003785 DNA binding site [nucleotide binding] 994484003786 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 994484003787 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 994484003788 ATP binding site [chemical binding]; other site 994484003789 Mg2+ binding site [ion binding]; other site 994484003790 G-X-G motif; other site 994484003791 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 994484003792 putative active cleft [active] 994484003793 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 994484003794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484003795 dimer interface [polypeptide binding]; other site 994484003796 conserved gate region; other site 994484003797 putative PBP binding loops; other site 994484003798 ABC-ATPase subunit interface; other site 994484003799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484003800 dimer interface [polypeptide binding]; other site 994484003801 conserved gate region; other site 994484003802 putative PBP binding loops; other site 994484003803 ABC-ATPase subunit interface; other site 994484003804 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484003805 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 994484003806 Walker A/P-loop; other site 994484003807 ATP binding site [chemical binding]; other site 994484003808 Q-loop/lid; other site 994484003809 ABC transporter signature motif; other site 994484003810 Walker B; other site 994484003811 D-loop; other site 994484003812 H-loop/switch region; other site 994484003813 TOBE domain; Region: TOBE_2; cl01440 994484003814 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 994484003815 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 994484003816 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 994484003817 active site 994484003818 phosphate binding residues; other site 994484003819 catalytic residues [active] 994484003820 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 994484003821 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...; Region: SIS_RpiR; cd05013 994484003822 putative active site [active] 994484003823 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 994484003824 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 994484003825 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 994484003826 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 994484003827 putative active site [active] 994484003828 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 994484003829 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 994484003830 active site 994484003831 intersubunit interface [polypeptide binding]; other site 994484003832 catalytic residue [active] 994484003833 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 994484003834 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484003835 catalytic residue [active] 994484003836 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 994484003837 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 994484003838 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 994484003839 Fusaric acid resistance protein family; Region: FUSC; pfam04632 994484003840 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 994484003841 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 994484003842 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 994484003843 (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...; Region: R_hydratase; cd03449 994484003844 dimer interaction site [polypeptide binding]; other site 994484003845 substrate-binding tunnel; other site 994484003846 active site 994484003847 catalytic site [active] 994484003848 substrate binding site [chemical binding]; other site 994484003849 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 994484003850 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 994484003851 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 994484003852 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 994484003853 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484003854 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 994484003855 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484003856 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 994484003857 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(...; Region: Pep_deformylase; cd00487 994484003858 active site 994484003859 catalytic residues [active] 994484003860 metal binding site [ion binding]; metal-binding site 994484003861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484003862 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484003863 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484003864 DNA binding site [nucleotide binding] 994484003865 domain linker motif; other site 994484003866 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 994484003867 putative ligand binding site [chemical binding]; other site 994484003868 putative dimerization interface [polypeptide binding]; other site 994484003869 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 994484003870 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 994484003871 ATP-binding site [chemical binding]; other site 994484003872 Gluconate-6-phosphate binding site [chemical binding]; other site 994484003873 gluconate transporter; Region: gntP; TIGR00791 994484003874 GntP family permease; Region: GntP_permease; cl15264 994484003875 aspartate aminotransferase; Provisional; Region: PRK07681 994484003876 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 994484003877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003878 homodimer interface [polypeptide binding]; other site 994484003879 catalytic residue [active] 994484003880 LysE type translocator; Region: LysE; cl00565 994484003881 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 994484003882 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484003883 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484003884 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 994484003885 YCII-related domain; Region: YCII; cl00999 994484003886 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 994484003887 putative hydrophobic ligand binding site [chemical binding]; other site 994484003888 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 994484003889 Imelysin; Region: Peptidase_M75; cl09159 994484003890 biofilm formation regulator HmsP; Provisional; Region: PRK11829 994484003891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484003892 metal binding site [ion binding]; metal-binding site 994484003893 active site 994484003894 I-site; other site 994484003895 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 994484003896 superoxide dismutase; Provisional; Region: PRK10543 994484003897 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 994484003898 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 994484003899 LysE type translocator; Region: LysE; cl00565 994484003900 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 994484003901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003902 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 994484003903 dimerization interface [polypeptide binding]; other site 994484003904 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484003905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484003906 NAD(P) binding site [chemical binding]; other site 994484003907 active site 994484003908 Cache domain; Region: Cache_2; cl07034 994484003909 Cache domain; Region: Cache_2; cl07034 994484003910 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484003911 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484003912 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484003913 ATP-dependent helicase HepA; Validated; Region: PRK04914 994484003914 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 994484003915 ATP binding site [chemical binding]; other site 994484003916 putative Mg++ binding site [ion binding]; other site 994484003917 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 994484003918 nucleotide binding region [chemical binding]; other site 994484003919 ATP-binding site [chemical binding]; other site 994484003920 Phosphate transporter family; Region: PHO4; cl00396 994484003921 Phosphate transporter family; Region: PHO4; cl00396 994484003922 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 994484003923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484003924 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484003925 benzoate transport; Region: 2A0115; TIGR00895 994484003926 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 994484003927 putative substrate translocation pore; other site 994484003928 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 994484003929 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 994484003930 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 994484003931 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 994484003932 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 994484003933 dimer interface [polypeptide binding]; other site 994484003934 active site 994484003935 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 994484003936 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 994484003937 multimer interface [polypeptide binding]; other site 994484003938 heterodimer interface [polypeptide binding]; other site 994484003939 active site 994484003940 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 994484003941 heterodimer interface [polypeptide binding]; other site 994484003942 active site 994484003943 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 994484003944 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 994484003945 putative substrate translocation pore; other site 994484003946 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 994484003947 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 994484003948 tetramer interface [polypeptide binding]; other site 994484003949 active site 994484003950 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484003951 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484003952 outer membrane porin, OprD family; Region: OprD; pfam03573 994484003953 NodT family; Region: outer_NodT; TIGR01845 994484003954 Outer membrane efflux protein; Region: OEP; pfam02321 994484003955 Outer membrane efflux protein; Region: OEP; pfam02321 994484003956 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484003957 Protein export membrane protein; Region: SecD_SecF; cl14618 994484003958 Protein export membrane protein; Region: SecD_SecF; cl14618 994484003959 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 994484003960 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 994484003961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484003962 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 994484003963 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484003964 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 994484003965 FMN binding site [chemical binding]; other site 994484003966 active site 994484003967 substrate binding site [chemical binding]; other site 994484003968 catalytic residue [active] 994484003969 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 994484003970 putative substrate translocation pore; other site 994484003971 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 994484003972 dimerization interface [polypeptide binding]; other site 994484003973 putative DNA binding site [nucleotide binding]; other site 994484003974 putative Zn2+ binding site [ion binding]; other site 994484003975 Protein of unknown function, DUF479; Region: DUF479; cl01203 994484003976 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484003977 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484003978 putative acyl-acceptor binding pocket; other site 994484003979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484003980 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003981 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484003982 Beta-lactamase; Region: Beta-lactamase; cl01009 994484003983 YceI-like domain; Region: YceI; cl01001 994484003984 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 994484003985 putative active site [active] 994484003986 catalytic site [active] 994484003987 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 994484003988 putative active site [active] 994484003989 catalytic site [active] 994484003990 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 994484003991 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 994484003992 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 994484003993 LemA family; Region: LemA; cl00742 994484003994 Domain of unknown function (DUF477); Region: DUF477; cl01535 994484003995 Domain of unknown function (DUF477); Region: DUF477; cl01535 994484003996 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; cl12011 994484003997 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 994484003998 conserved cys residue [active] 994484003999 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 994484004000 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 994484004001 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 994484004002 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484004003 dimer interface [polypeptide binding]; other site 994484004004 active site 994484004005 metal binding site [ion binding]; metal-binding site 994484004006 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 994484004007 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484004008 putative substrate translocation pore; other site 994484004009 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 994484004010 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 994484004011 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484004012 catalytic residue [active] 994484004013 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 994484004014 dimer interface [polypeptide binding]; other site 994484004015 Mn binding site [ion binding]; other site 994484004016 K binding site; other site 994484004017 PAS fold; Region: PAS_4; pfam08448 994484004018 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 994484004019 putative active site [active] 994484004020 heme pocket [chemical binding]; other site 994484004021 GAF domain; Region: GAF; cl00853 994484004022 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004023 metal binding site [ion binding]; metal-binding site 994484004024 active site 994484004025 I-site; other site 994484004026 Predicted outer membrane protein [Function unknown]; Region: COG3652 994484004027 Low affinity iron permease; Region: Iron_permease; cl12096 994484004028 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 994484004029 YcfA-like protein; Region: YcfA; cl00752 994484004030 LysE type translocator; Region: LysE; cl00565 994484004031 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484004032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004033 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 994484004034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484004035 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484004036 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 994484004037 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 994484004038 active site 994484004039 uracil binding [chemical binding]; other site 994484004040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004041 metal binding site [ion binding]; metal-binding site 994484004042 active site 994484004043 I-site; other site 994484004044 allophanate hydrolase; Provisional; Region: PRK08186 994484004045 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; cl11426 994484004046 urea carboxylase; Region: urea_carbox; TIGR02712 994484004047 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484004048 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484004049 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 994484004050 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 994484004051 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 994484004052 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 994484004053 carboxyltransferase (CT) interaction site; other site 994484004054 biotinylation site [posttranslational modification]; other site 994484004055 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484004056 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484004057 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484004058 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 994484004059 Walker A/P-loop; other site 994484004060 ATP binding site [chemical binding]; other site 994484004061 Q-loop/lid; other site 994484004062 ABC transporter signature motif; other site 994484004063 Walker B; other site 994484004064 D-loop; other site 994484004065 H-loop/switch region; other site 994484004066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484004067 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484004068 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484004069 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 994484004070 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 994484004071 substrate binding site [chemical binding]; other site 994484004072 oxyanion hole (OAH) forming residues; other site 994484004073 trimer interface [polypeptide binding]; other site 994484004074 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 994484004075 ligand binding site [chemical binding]; other site 994484004076 active site 994484004077 UGI interface [polypeptide binding]; other site 994484004078 catalytic site [active] 994484004079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484004080 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484004081 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484004082 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484004083 Putative ammonia monooxygenase; Region: AmoA; pfam05145 994484004084 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484004085 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 994484004086 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 994484004087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 994484004088 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484004089 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 994484004090 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 994484004091 active site 994484004092 phosphorylation site [posttranslational modification] 994484004093 intermolecular recognition site; other site 994484004094 dimerization interface [polypeptide binding]; other site 994484004095 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...; Region: trans_reg_C; cd00383 994484004096 DNA binding site [nucleotide binding] 994484004097 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 994484004098 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484004099 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 trans-...; Region: HisKA; cd00082 994484004100 dimer interface [polypeptide binding]; other site 994484004101 phosphorylation site [posttranslational modification] 994484004102 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 994484004103 ATP binding site [chemical binding]; other site 994484004104 Mg2+ binding site [ion binding]; other site 994484004105 G-X-G motif; other site 994484004106 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484004107 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484004108 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 994484004109 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 994484004110 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 994484004111 L-aspartate oxidase; Provisional; Region: PRK09077 994484004112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004113 domain; Region: Succ_DH_flav_C; pfam02910 994484004114 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 994484004115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004116 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...; Region: Sigma70_r4; cd06171 994484004117 DNA binding residues [nucleotide binding] 994484004118 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 994484004119 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 994484004120 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 994484004121 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 994484004122 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 994484004123 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...; Region: Tryp_SPc; cl00149 994484004124 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 C-...; Region: PDZ_serine_protease; cd00987 994484004125 protein binding site [polypeptide binding]; other site 994484004126 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 C-...; Region: PDZ_serine_protease; cd00987 994484004127 protein binding site [polypeptide binding]; other site 994484004128 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 994484004129 Peptidase family M48; Region: Peptidase_M48; cl12018 994484004130 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 two-...; Region: SirA_YedF_YeeD; cd00291 994484004131 CPxP motif; other site 994484004132 Domain of unknown function DUF20; Region: UPF0118; cl00465 994484004133 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 994484004134 catalytic triad [active] 994484004135 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 994484004136 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-...; Region: CBS_pair; cl09141 994484004137 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 994484004138 dihydrodipicolinate synthase; Region: dapA; TIGR00674 994484004139 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 994484004140 dimer interface [polypeptide binding]; other site 994484004141 active site 994484004142 catalytic residue [active] 994484004143 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 994484004144 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 994484004145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484004146 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 994484004147 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 994484004148 ATP binding site [chemical binding]; other site 994484004149 active site 994484004150 substrate binding site [chemical binding]; other site 994484004151 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484004152 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484004153 dimerization interface [polypeptide binding]; other site 994484004154 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484004155 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 994484004156 Cupin domain; Region: Cupin_2; cl09118 994484004157 Cupin domain; Region: Cupin_2; cl09118 994484004158 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484004159 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 994484004160 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 994484004161 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 994484004162 Ligand binding site [chemical binding]; other site 994484004163 Putative Catalytic site [active] 994484004164 DXD motif; other site 994484004165 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; cl12011 994484004166 GtrA-like protein; Region: GtrA; cl00971 994484004167 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 994484004168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004170 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 994484004171 putative substrate binding pocket [chemical binding]; other site 994484004172 putative dimerization interface [polypeptide binding]; other site 994484004173 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 994484004174 putative substrate binding pocket [chemical binding]; other site 994484004175 trimer interface [polypeptide binding]; other site 994484004176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004178 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 994484004179 substrate binding pocket [chemical binding]; other site 994484004180 dimerization interface [polypeptide binding]; other site 994484004181 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484004182 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484004183 putative metal dependent hydrolase; Provisional; Region: PRK11598 994484004184 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 994484004185 Sulfatase; Region: Sulfatase; cl10460 994484004186 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 994484004187 S-adenosylmethionine binding site [chemical binding]; other site 994484004188 ribonuclease D; Region: rnd; TIGR01388 994484004189 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 994484004190 putative active site [active] 994484004191 catalytic site [active] 994484004192 putative substrate binding site [chemical binding]; other site 994484004193 HRDC domain; Region: HRDC; cl02578 994484004194 YcgL domain; Region: YcgL; cl01189 994484004195 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 994484004196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004197 Nitroreductase-like family 2. 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_2; cd02138 994484004198 putative FMN binding site [chemical binding]; other site 994484004199 Flagellin N-methylase; Region: FliB; cl00497 994484004200 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 994484004201 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 994484004202 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 994484004203 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484004204 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484004205 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484004206 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; cl11391 994484004207 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 994484004208 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...; Region: HNHc; cl00083 994484004209 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; cl12011 994484004210 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 994484004211 ligand binding site [chemical binding]; other site 994484004212 flexible hinge region; other site 994484004213 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 994484004214 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 994484004215 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 994484004216 putative active site [active] 994484004217 putative dimer interface [polypeptide binding]; other site 994484004218 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 994484004219 benzoate transport; Region: 2A0115; TIGR00895 994484004220 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 994484004221 putative substrate translocation pore; other site 994484004222 LamB/YcsF family; Region: LamB_YcsF; cl00664 994484004223 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 994484004224 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 994484004225 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 994484004226 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 994484004227 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 994484004228 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484004229 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...; Region: AAA; cd00009 994484004230 Walker A motif; other site 994484004231 ATP binding site [chemical binding]; other site 994484004232 Walker B motif; other site 994484004233 arginine finger; other site 994484004234 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 994484004235 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484004236 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484004237 cysteine synthases; Region: cysKM; TIGR01136 994484004238 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 994484004239 dimer interface [polypeptide binding]; other site 994484004240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004241 catalytic residue [active] 994484004242 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl01426 994484004243 EamA-like transporter family; Region: EamA; cl01037 994484004244 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484004245 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 994484004246 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 994484004247 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 994484004248 ATP binding site [chemical binding]; other site 994484004249 putative Mg++ binding site [ion binding]; other site 994484004250 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 994484004251 nucleotide binding region [chemical binding]; other site 994484004252 ATP-binding site [chemical binding]; other site 994484004253 Helicase associated domain (HA2); Region: HA2; cl04503 994484004254 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 994484004255 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 994484004256 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 994484004257 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 994484004258 dimer interface [polypeptide binding]; other site 994484004259 active site 994484004260 CoA binding pocket [chemical binding]; other site 994484004261 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 994484004262 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004263 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...; Region: Sigma70_r4; cd06171 994484004264 DNA binding residues [nucleotide binding] 994484004265 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 994484004266 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 994484004267 FemAB family; Region: FemAB; cl11444 994484004268 Protein of unknown function, DUF482; Region: DUF482; pfam04339 994484004269 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-...; Region: MIP; cd00333 994484004270 amphipathic channel; other site 994484004271 Asn-Pro-Ala signature motifs; other site 994484004272 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 994484004273 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484004274 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 994484004275 Walker A/P-loop; other site 994484004276 ATP binding site [chemical binding]; other site 994484004277 Q-loop/lid; other site 994484004278 ABC transporter signature motif; other site 994484004279 Walker B; other site 994484004280 D-loop; other site 994484004281 H-loop/switch region; other site 994484004282 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 994484004283 substrate binding site [chemical binding]; other site 994484004284 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484004285 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 994484004286 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 994484004287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004288 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004289 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 994484004290 dimerization interface [polypeptide binding]; other site 994484004291 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484004292 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 trans-...; Region: HisKA; cd00082 994484004293 dimer interface [polypeptide binding]; other site 994484004294 phosphorylation site [posttranslational modification] 994484004295 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 994484004296 ATP binding site [chemical binding]; other site 994484004297 Mg2+ binding site [ion binding]; other site 994484004298 G-X-G motif; other site 994484004299 Response regulator receiver domain; Region: Response_reg; pfam00072 994484004300 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 994484004301 active site 994484004302 phosphorylation site [posttranslational modification] 994484004303 intermolecular recognition site; other site 994484004304 dimerization interface [polypeptide binding]; other site 994484004305 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484004306 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484004307 helicase 45; Provisional; Region: PTZ00424 994484004308 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 994484004309 ATP binding site [chemical binding]; other site 994484004310 Mg++ binding site [ion binding]; other site 994484004311 motif III; other site 994484004312 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 994484004313 nucleotide binding region [chemical binding]; other site 994484004314 ATP-binding site [chemical binding]; other site 994484004315 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 994484004316 non-specific DNA binding site [nucleotide binding]; other site 994484004317 salt bridge; other site 994484004318 sequence-specific DNA binding site [nucleotide binding]; other site 994484004319 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484004320 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 994484004321 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 994484004322 Sodium:solute symporter family; Region: SSF; cl00456 994484004323 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 994484004324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004326 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 994484004327 putative dimerization interface [polypeptide binding]; other site 994484004328 Sodium:solute symporter family; Region: SSF; cl00456 994484004329 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484004330 Sodium:solute symporter family; Region: SSF; cl00456 994484004331 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 994484004332 Arginase family; Region: Arginase; cl00306 994484004333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004334 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004335 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 994484004336 dimerization interface [polypeptide binding]; other site 994484004337 potential frameshift: common BLAST hit: gi|77457686|ref|YP_347191.1| DTW 994484004338 DTW domain; Region: DTW; cl01221 994484004339 DTW domain; Region: DTW; cl01221 994484004340 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484004341 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 994484004342 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 994484004343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484004344 Walker A/P-loop; other site 994484004345 ATP binding site [chemical binding]; other site 994484004346 Q-loop/lid; other site 994484004347 ABC transporter signature motif; other site 994484004348 Walker B; other site 994484004349 D-loop; other site 994484004350 H-loop/switch region; other site 994484004351 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484004352 Outer membrane efflux protein; Region: OEP; pfam02321 994484004353 Outer membrane efflux protein; Region: OEP; pfam02321 994484004354 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004355 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004356 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004357 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 994484004358 metal ion-dependent adhesion site (MIDAS); other site 994484004359 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484004360 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484004361 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 994484004362 Protein of unknown function (DUF454); Region: DUF454; cl01063 994484004363 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 994484004364 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 994484004365 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 994484004366 ATP binding site [chemical binding]; other site 994484004367 putative Mg++ binding site [ion binding]; other site 994484004368 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 994484004369 nucleotide binding region [chemical binding]; other site 994484004370 ATP-binding site [chemical binding]; other site 994484004371 RQC domain; Region: RQC; cl09632 994484004372 HRDC domain; Region: HRDC; cl02578 994484004373 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484004374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004375 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 994484004376 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 994484004377 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 994484004378 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 994484004379 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 994484004380 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 994484004381 active site 994484004382 nucleophile elbow; other site 994484004383 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484004384 Surface antigen; Region: Bac_surface_Ag; cl03097 994484004385 Rdx family; Region: Rdx; cl01407 994484004386 EamA-like transporter family; Region: EamA; cl01037 994484004387 Cupin domain; Region: Cupin_2; cl09118 994484004388 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484004389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484004390 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484004391 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 994484004392 putative active site [active] 994484004393 putative metal binding site [ion binding]; other site 994484004394 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484004395 Protein of unknown function (DUF962); Region: DUF962; cl01879 994484004396 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484004397 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484004398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484004399 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 994484004400 Cation transport protein; Region: TrkH; cl10514 994484004401 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 beta-...; Region: Arsenite_oxidase; cd02135 994484004402 putative FMN binding site [chemical binding]; other site 994484004403 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 994484004404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004405 homodimer interface [polypeptide binding]; other site 994484004406 catalytic residue [active] 994484004407 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 994484004408 aromatic arch; other site 994484004409 DCoH dimer interaction site [polypeptide binding]; other site 994484004410 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 994484004411 DCoH tetramer interaction site [polypeptide binding]; other site 994484004412 substrate binding site [chemical binding]; other site 994484004413 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH)...; Region: pro_PheOH; cd03348 994484004414 cofactor binding site; other site 994484004415 metal binding site [ion binding]; metal-binding site 994484004416 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 994484004417 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-...; Region: CBS_pair; cl09141 994484004418 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 994484004419 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...; Region: AAA; cd00009 994484004420 Walker A motif; other site 994484004421 ATP binding site [chemical binding]; other site 994484004422 Walker B motif; other site 994484004423 arginine finger; other site 994484004424 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 994484004425 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 994484004426 inhibitor-cofactor binding pocket; inhibition site 994484004427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004428 catalytic residue [active] 994484004429 WbqC-like protein family; Region: WbqC; pfam08889 994484004430 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 994484004431 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484004432 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484004433 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 994484004434 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 994484004435 S-adenosylmethionine binding site [chemical binding]; other site 994484004436 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 994484004437 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484004438 Probable Catalytic site [active] 994484004439 metal binding site [ion binding]; metal-binding site 994484004440 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 994484004441 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484004442 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484004443 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 994484004444 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484004445 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484004446 Flagellar L-ring protein; Region: FlgH; cl00905 994484004447 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 994484004448 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 994484004449 Rod binding protein; Region: Rod-binding; cl01626 994484004450 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 994484004451 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 994484004452 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484004453 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 994484004454 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 994484004455 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 994484004456 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 994484004457 active site 994484004458 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 994484004459 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484004460 Probable Catalytic site [active] 994484004461 metal binding site [ion binding]; metal-binding site 994484004462 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 994484004463 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 994484004464 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 994484004465 active site 994484004466 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 994484004467 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 994484004468 dimer interface [polypeptide binding]; other site 994484004469 active site 994484004470 CoA binding pocket [chemical binding]; other site 994484004471 flagellin; Provisional; Region: PRK12802 994484004472 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 994484004473 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 994484004474 FlaG protein; Region: FlaG; cl00591 994484004475 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 994484004476 flagellar capping protein; Reviewed; Region: fliD; PRK08032 994484004477 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 994484004478 Flagellar protein FliS; Region: FliS; cl00654 994484004479 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484004480 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 994484004481 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...; Region: AAA; cd00009 994484004482 Walker A motif; other site 994484004483 ATP binding site [chemical binding]; other site 994484004484 Walker B motif; other site 994484004485 arginine finger; other site 994484004486 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484004487 sensory histidine kinase AtoS; Provisional; Region: PRK11360 994484004488 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 trans-...; Region: HisKA; cd00082 994484004489 dimer interface [polypeptide binding]; other site 994484004490 phosphorylation site [posttranslational modification] 994484004491 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 994484004492 ATP binding site [chemical binding]; other site 994484004493 Mg2+ binding site [ion binding]; other site 994484004494 G-X-G motif; other site 994484004495 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484004496 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 994484004497 active site 994484004498 phosphorylation site [posttranslational modification] 994484004499 intermolecular recognition site; other site 994484004500 dimerization interface [polypeptide binding]; other site 994484004501 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...; Region: AAA; cd00009 994484004502 Walker A motif; other site 994484004503 ATP binding site [chemical binding]; other site 994484004504 Walker B motif; other site 994484004505 arginine finger; other site 994484004506 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 994484004507 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 994484004508 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 994484004509 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 994484004510 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 994484004511 MgtE intracellular N domain; Region: MgtE_N; cl15244 994484004512 FliG C-terminal domain; Region: FliG_C; pfam01706 994484004513 flagellar assembly protein H; Validated; Region: fliH; PRK05687 994484004514 Flagellar assembly protein FliH; Region: FliH; pfam02108 994484004515 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 994484004516 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 994484004517 Walker A motif/ATP binding site; other site 994484004518 Walker B motif; other site 994484004519 Flagellar FliJ protein; Region: FliJ; cl09161 994484004520 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 994484004521 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 994484004522 anti sigma factor interaction site; other site 994484004523 regulatory phosphorylation site [posttranslational modification]; other site 994484004524 Response regulator receiver domain; Region: Response_reg; pfam00072 994484004525 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 994484004526 active site 994484004527 phosphorylation site [posttranslational modification] 994484004528 intermolecular recognition site; other site 994484004529 dimerization interface [polypeptide binding]; other site 994484004530 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 994484004531 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 994484004532 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 994484004533 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 994484004534 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 994484004535 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 994484004536 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484004537 flagellar motor switch protein; Validated; Region: fliN; PRK05698 994484004538 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484004539 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 994484004540 FliP family; Region: FliP; cl00593 994484004541 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 994484004542 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 994484004543 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 994484004544 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 994484004545 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 994484004546 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 994484004547 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 994484004548 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484004549 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 994484004550 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484004551 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 994484004552 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 994484004553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004554 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 994484004555 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...; Region: Sigma70_r4; cd06171 994484004556 DNA binding residues [nucleotide binding] 994484004557 Response regulator receiver domain; Region: Response_reg; pfam00072 994484004558 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 994484004559 active site 994484004560 phosphorylation site [posttranslational modification] 994484004561 intermolecular recognition site; other site 994484004562 dimerization interface [polypeptide binding]; other site 994484004563 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 994484004564 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 994484004565 putative binding surface; other site 994484004566 active site 994484004567 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484004568 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 994484004569 ATP binding site [chemical binding]; other site 994484004570 Mg2+ binding site [ion binding]; other site 994484004571 G-X-G motif; other site 994484004572 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 994484004573 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 994484004574 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 994484004575 active site 994484004576 phosphorylation site [posttranslational modification] 994484004577 intermolecular recognition site; other site 994484004578 dimerization interface [polypeptide binding]; other site 994484004579 CheB methylesterase; Region: CheB_methylest; pfam01339 994484004580 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 994484004581 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484004582 flagellar motor protein MotD; Reviewed; Region: PRK09038 994484004583 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484004584 ligand binding site [chemical binding]; other site 994484004585 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484004586 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...; Region: ParA; cd02042 994484004587 P-loop; other site 994484004588 Magnesium ion binding site [ion binding]; other site 994484004589 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...; Region: ParA; cd02042 994484004590 Magnesium ion binding site [ion binding]; other site 994484004591 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 994484004592 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 994484004593 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 994484004594 putative CheA interaction surface; other site 994484004595 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 994484004596 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 994484004597 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 994484004598 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH); Region: ABC_CcmA_heme_exporter; cd03231 994484004599 Walker A/P-loop; other site 994484004600 ATP binding site [chemical binding]; other site 994484004601 Q-loop/lid; other site 994484004602 ABC transporter signature motif; other site 994484004603 Walker B; other site 994484004604 D-loop; other site 994484004605 H-loop/switch region; other site 994484004606 CcmB protein; Region: CcmB; cl01016 994484004607 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 994484004608 Heme exporter protein D (CcmD); Region: CcmD; cl11475 994484004609 CcmE; Region: CcmE; cl00994 994484004610 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 994484004611 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 994484004612 catalytic residues [active] 994484004613 central insert; other site 994484004614 Cytochrome C biogenesis protein; Region: CcmH; cl01179 994484004615 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 994484004616 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 994484004617 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 994484004618 binding surface 994484004619 TPR motif; other site 994484004620 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 994484004621 Sulfatase; Region: Sulfatase; cl10460 994484004622 short chain dehydrogenase; Provisional; Region: PRK05650 994484004623 classical (c) SDRs; Region: SDR_c; cd05233 994484004624 NAD(P) binding site [chemical binding]; other site 994484004625 active site 994484004626 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 994484004627 Global regulator protein family; Region: CsrA; cl00670 994484004628 Uncharacterised protein family (UPF0270); Region: UPF0270; cl01180 994484004629 hydrolase, peptidase M42 family; Region: trio_M42_hydro; TIGR03106 994484004630 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 994484004631 putative oligomer interface [polypeptide binding]; other site 994484004632 putative active site [active] 994484004633 metal binding site [ion binding]; metal-binding site 994484004634 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 994484004635 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484004636 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484004637 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 994484004638 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 994484004639 active site 994484004640 dimer interface [polypeptide binding]; other site 994484004641 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 994484004642 Ligand Binding Site [chemical binding]; other site 994484004643 Molecular Tunnel; other site 994484004644 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 994484004645 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; cl12011 994484004646 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484004647 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 994484004648 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 994484004649 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 994484004650 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 994484004651 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 994484004652 dimer interface [polypeptide binding]; other site 994484004653 active site 994484004654 fumarate hydratase; Provisional; Region: PRK12425 994484004655 Class II fumarases; Region: Fumarase_classII; cd01362 994484004656 active site 994484004657 tetramer interface [polypeptide binding]; other site 994484004658 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 994484004659 BolA-like protein; Region: BolA; cl00386 994484004660 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 994484004661 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 994484004662 active site residue [active] 994484004663 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 994484004664 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 994484004665 catalytic residues [active] 994484004666 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 994484004667 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484004668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484004669 Walker A/P-loop; other site 994484004670 ATP binding site [chemical binding]; other site 994484004671 Q-loop/lid; other site 994484004672 ABC transporter signature motif; other site 994484004673 Walker B; other site 994484004674 D-loop; other site 994484004675 H-loop/switch region; other site 994484004676 PAS domain S-box; Region: sensory_box; TIGR00229 994484004677 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 994484004678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004679 metal binding site [ion binding]; metal-binding site 994484004680 active site 994484004681 I-site; other site 994484004682 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 994484004683 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 994484004684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004685 metal binding site [ion binding]; metal-binding site 994484004686 active site 994484004687 I-site; other site 994484004688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004689 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484004690 NAD(P) binding site [chemical binding]; other site 994484004691 active site 994484004692 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484004693 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 994484004694 motif II; other site 994484004695 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 994484004696 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 994484004697 S-adenosylmethionine binding site [chemical binding]; other site 994484004698 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 994484004699 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 994484004700 active site 994484004701 putative substrate binding pocket [chemical binding]; other site 994484004702 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 994484004703 Initiation factor 2 subunit family; Region: IF-2B; pfam01008 994484004704 DNA gyrase subunit A; Validated; Region: PRK05560 994484004705 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...; Region: TOP4c; cd00187 994484004706 CAP-like domain; other site 994484004707 Active site [active] 994484004708 primary dimer interface [polypeptide binding]; other site 994484004709 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484004710 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484004711 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484004712 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484004713 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484004714 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484004715 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 994484004716 homodimer interface [polypeptide binding]; other site 994484004717 substrate-cofactor binding pocket; other site 994484004718 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 994484004719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004720 catalytic residue [active] 994484004721 Chorismate mutase type II; Region: CM_2; cl00693 994484004722 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 994484004723 Prephenate dehydratase; Region: PDT; pfam00800 994484004724 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 994484004725 putative L-Phe binding site [chemical binding]; other site 994484004726 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 994484004727 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 994484004728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004729 homodimer interface [polypeptide binding]; other site 994484004730 catalytic residue [active] 994484004731 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 994484004732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004733 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 994484004734 hinge; other site 994484004735 active site 994484004736 cytidylate kinase; Provisional; Region: cmk; PRK00023 994484004737 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 994484004738 CMP-binding site; other site 994484004739 The sites determining sugar specificity; other site 994484004740 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 994484004741 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 994484004742 RNA binding site [nucleotide binding]; other site 994484004743 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 994484004744 RNA binding site [nucleotide binding]; other site 994484004745 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 994484004746 RNA binding site [nucleotide binding]; other site 994484004747 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 994484004748 RNA binding site [nucleotide binding]; other site 994484004749 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 994484004750 RNA binding site [nucleotide binding]; other site 994484004751 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 994484004752 RNA binding site [nucleotide binding]; other site 994484004753 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 higher-...; Region: HU_IHF; cd00591 994484004754 IHF dimer interface [polypeptide binding]; other site 994484004755 IHF - DNA interface [nucleotide binding]; other site 994484004756 Chain length determinant protein; Region: Wzz; cl01623 994484004757 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 994484004758 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484004759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004761 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484004762 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 994484004763 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 994484004764 putative trimer interface [polypeptide binding]; other site 994484004765 putative active site [active] 994484004766 putative substrate binding site [chemical binding]; other site 994484004767 putative CoA binding site [chemical binding]; other site 994484004768 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 994484004769 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 994484004770 inhibitor-cofactor binding pocket; inhibition site 994484004771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004772 catalytic residue [active] 994484004773 MatE; Region: MatE; cl10513 994484004774 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 994484004775 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 994484004776 active site 994484004777 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...; Region: Alpha_ANH_like_III; cd01996 994484004778 Ligand Binding Site [chemical binding]; other site 994484004779 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 994484004780 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 994484004781 putative active site [active] 994484004782 oxyanion strand; other site 994484004783 catalytic triad [active] 994484004784 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)-formimino-5-; Region: HisF; cd04731 994484004785 substrate binding site [chemical binding]; other site 994484004786 glutamase interaction surface [polypeptide binding]; other site 994484004787 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 994484004788 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 994484004789 NAD(P) binding site [chemical binding]; other site 994484004790 homodimer interface [polypeptide binding]; other site 994484004791 substrate binding site [chemical binding]; other site 994484004792 active site 994484004793 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 994484004794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004795 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 994484004796 NAD(P) binding site [chemical binding]; other site 994484004797 active site 994484004798 Cupin domain; Region: Cupin_2; cl09118 994484004799 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 994484004800 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 994484004801 active site 994484004802 homodimer interface [polypeptide binding]; other site 994484004803 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 994484004804 putative glycosyl transferase; Provisional; Region: PRK10307 994484004805 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484004806 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 994484004807 putative NAD(P) binding site [chemical binding]; other site 994484004808 active site 994484004809 putative substrate binding site [chemical binding]; other site 994484004810 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 994484004811 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine...; Region: GT_WbpL_WbcO_like; cd06854 994484004812 Mg++ binding site [ion binding]; other site 994484004813 putative catalytic motif [active] 994484004814 putative substrate binding site [chemical binding]; other site 994484004815 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 994484004816 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 994484004817 NAD(P) binding site [chemical binding]; other site 994484004818 homodimer interface [polypeptide binding]; other site 994484004819 substrate binding site [chemical binding]; other site 994484004820 active site 994484004821 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 994484004822 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 994484004823 inhibitor-cofactor binding pocket; inhibition site 994484004824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004825 catalytic residue [active] 994484004826 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 994484004827 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 994484004828 NAD(P) binding site [chemical binding]; other site 994484004829 homodimer interface [polypeptide binding]; other site 994484004830 substrate binding site [chemical binding]; other site 994484004831 active site 994484004832 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 994484004833 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 994484004834 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 994484004835 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 994484004836 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 994484004837 putative trimer interface [polypeptide binding]; other site 994484004838 putative CoA binding site [chemical binding]; other site 994484004839 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; cl12011 994484004840 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 994484004841 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 994484004842 Ligand binding site [chemical binding]; other site 994484004843 Putative Catalytic site [active] 994484004844 DXD motif; other site 994484004845 WbqC-like protein family; Region: WbqC; pfam08889 994484004846 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484004847 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 994484004848 ethanolamine permease; Region: 2A0305; TIGR00908 994484004849 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484004850 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 994484004851 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 994484004852 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 994484004853 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484004854 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; cl11391 994484004855 K+-transporting ATPase, c chain; Region: KdpC; cl00944 994484004856 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 994484004857 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 994484004858 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 994484004859 Ligand Binding Site [chemical binding]; other site 994484004860 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 trans-...; Region: HisKA; cd00082 994484004861 dimer interface [polypeptide binding]; other site 994484004862 phosphorylation site [posttranslational modification] 994484004863 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 994484004864 ATP binding site [chemical binding]; other site 994484004865 Mg2+ binding site [ion binding]; other site 994484004866 G-X-G motif; other site 994484004867 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 994484004868 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 994484004869 active site 994484004870 phosphorylation site [posttranslational modification] 994484004871 intermolecular recognition site; other site 994484004872 dimerization interface [polypeptide binding]; other site 994484004873 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...; Region: trans_reg_C; cd00383 994484004874 DNA binding site [nucleotide binding] 994484004875 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 994484004876 active site 994484004877 nucleophile elbow; other site 994484004878 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 994484004879 CHAD domain; Region: CHAD; cl10506 994484004880 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 994484004881 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 994484004882 active site 994484004883 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 994484004884 active site 2 [active] 994484004885 active site 1 [active] 994484004886 Terminase small subunit; Region: Terminase_2; cl01513 994484004887 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484004888 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484004889 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484004890 potential frameshift: common BLAST hit: gi|77460242|ref|YP_349749.1| Sec-independent protein translocase TatD 994484004891 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...; Region: metallo-dependent_hydrolases; cl00281 994484004892 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 994484004893 active site 994484004894 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 994484004895 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...; Region: PBPb; cd00134 994484004896 substrate binding pocket [chemical binding]; other site 994484004897 membrane-bound complex binding site; other site 994484004898 hinge residues; other site 994484004899 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 994484004900 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484004901 catalytic residue [active] 994484004902 DoxX; Region: DoxX; cl00976 994484004903 Reovirus P9-like family; Region: Reo_P9; pfam06043 994484004904 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 994484004905 domain; Region: GreA_GreB_N; pfam03449 994484004906 C-term; Region: GreA_GreB; pfam01272 994484004907 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 994484004908 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 994484004909 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 994484004910 Walker A/P-loop; other site 994484004911 ATP binding site [chemical binding]; other site 994484004912 Q-loop/lid; other site 994484004913 ABC transporter signature motif; other site 994484004914 Walker B; other site 994484004915 D-loop; other site 994484004916 H-loop/switch region; other site 994484004917 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 994484004918 active site 994484004919 catalytic triad [active] 994484004920 oxyanion hole [active] 994484004921 switch loop; other site 994484004922 L,D-transpeptidase; Provisional; Region: PRK10260 994484004923 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 994484004924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484004925 NeuB family; Region: NeuB; cl00496 994484004926 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 994484004927 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 994484004928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004929 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 994484004930 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 994484004931 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 994484004932 Ligand Binding Site [chemical binding]; other site 994484004933 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 994484004934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004935 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 994484004936 substrate binding site [chemical binding]; other site 994484004937 dimerization interface [polypeptide binding]; other site 994484004938 C-term; Region: GreA_GreB; pfam01272 994484004939 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 994484004940 elongation factor P; Validated; Region: PRK00529 994484004941 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 994484004942 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 994484004943 RNA binding site [nucleotide binding]; other site 994484004944 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 994484004945 RNA binding site [nucleotide binding]; other site 994484004946 Chlorophyllase; Region: Chlorophyllase; cl15281 994484004947 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 994484004948 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 994484004949 OsmC-like protein; Region: OsmC; cl00767 994484004950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004951 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484004952 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484004953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004955 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 994484004956 dimerization interface [polypeptide binding]; other site 994484004957 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 994484004958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 994484004959 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 994484004960 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 994484004961 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; cl12011 994484004962 helicase 45; Provisional; Region: PTZ00424 994484004963 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 994484004964 ATP binding site [chemical binding]; other site 994484004965 Mg++ binding site [ion binding]; other site 994484004966 motif III; other site 994484004967 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 994484004968 nucleotide binding region [chemical binding]; other site 994484004969 ATP-binding site [chemical binding]; other site 994484004970 DbpA RNA binding domain; Region: DbpA; pfam03880 994484004971 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 994484004972 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 994484004973 putative active site [active] 994484004974 metal binding site [ion binding]; metal-binding site 994484004975 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; cl12011 994484004976 Peptidase family M48; Region: Peptidase_M48; cl12018 994484004977 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 994484004978 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 994484004979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004980 homodimer interface [polypeptide binding]; other site 994484004981 catalytic residue [active] 994484004982 SelR domain; Region: SelR; cl00369 994484004983 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue...; Region: GSH_Peroxidase; cd00340 994484004984 catalytic residues [active] 994484004985 dimer interface [polypeptide binding]; other site 994484004986 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484004987 biofilm formation regulator HmsP; Provisional; Region: PRK11829 994484004988 two component system sensor kinase SsrA; Provisional; Region: PRK15347 994484004989 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 trans-...; Region: HisKA; cd00082 994484004990 dimer interface [polypeptide binding]; other site 994484004991 phosphorylation site [posttranslational modification] 994484004992 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 994484004993 ATP binding site [chemical binding]; other site 994484004994 Mg2+ binding site [ion binding]; other site 994484004995 G-X-G motif; other site 994484004996 Response regulator receiver domain; Region: Response_reg; pfam00072 994484004997 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 994484004998 active site 994484004999 phosphorylation site [posttranslational modification] 994484005000 intermolecular recognition site; other site 994484005001 dimerization interface [polypeptide binding]; other site 994484005002 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 994484005003 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...; Region: AAA; cd00009 994484005004 Walker A motif; other site 994484005005 ATP binding site [chemical binding]; other site 994484005006 Walker B motif; other site 994484005007 GAF domain; Region: GAF; cl00853 994484005008 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 994484005009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484005010 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 994484005011 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...; Region: PBPb; cd00134 994484005012 substrate binding pocket [chemical binding]; other site 994484005013 membrane-bound complex binding site; other site 994484005014 hinge residues; other site 994484005015 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...; Region: PBPb; cd00134 994484005016 substrate binding pocket [chemical binding]; other site 994484005017 membrane-bound complex binding site; other site 994484005018 hinge residues; other site 994484005019 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 994484005020 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 trans-...; Region: HisKA; cd00082 994484005021 dimer interface [polypeptide binding]; other site 994484005022 phosphorylation site [posttranslational modification] 994484005023 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 994484005024 ATP binding site [chemical binding]; other site 994484005025 Mg2+ binding site [ion binding]; other site 994484005026 G-X-G motif; other site 994484005027 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 994484005028 active site 994484005029 phosphorylation site [posttranslational modification] 994484005030 intermolecular recognition site; other site 994484005031 dimerization interface [polypeptide binding]; other site 994484005032 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 994484005033 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484005034 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 994484005035 active site 994484005036 phosphorylation site [posttranslational modification] 994484005037 intermolecular recognition site; other site 994484005038 dimerization interface [polypeptide binding]; other site 994484005039 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...; Region: LuxR_C_like; cd06170 994484005040 DNA binding residues [nucleotide binding] 994484005041 dimerization interface [polypeptide binding]; other site 994484005042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484005043 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 994484005044 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 994484005045 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 994484005046 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 994484005047 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484005048 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484005049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005050 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484005051 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 994484005052 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 994484005053 probable active site [active] 994484005054 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 994484005055 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 994484005056 GTP binding site [chemical binding]; other site 994484005057 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 994484005058 MPT binding site; other site 994484005059 trimer interface [polypeptide binding]; other site 994484005060 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 994484005061 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 994484005062 dimer interface [polypeptide binding]; other site 994484005063 putative functional site; other site 994484005064 putative MPT binding site; other site 994484005065 lipid kinase; Reviewed; Region: PRK13054 994484005066 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 994484005067 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484005068 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 994484005069 active site 994484005070 phosphorylation site [posttranslational modification] 994484005071 intermolecular recognition site; other site 994484005072 dimerization interface [polypeptide binding]; other site 994484005073 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...; Region: LuxR_C_like; cd06170 994484005074 DNA binding residues [nucleotide binding] 994484005075 dimerization interface [polypeptide binding]; other site 994484005076 Histidine kinase; Region: HisKA_3; pfam07730 994484005077 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 994484005078 ATP binding site [chemical binding]; other site 994484005079 Mg2+ binding site [ion binding]; other site 994484005080 G-X-G motif; other site 994484005081 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484005082 Response regulator receiver domain; Region: Response_reg; pfam00072 994484005083 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 994484005084 active site 994484005085 phosphorylation site [posttranslational modification] 994484005086 intermolecular recognition site; other site 994484005087 dimerization interface [polypeptide binding]; other site 994484005088 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 994484005089 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 994484005090 MOSC domain; Region: MOSC; pfam03473 994484005091 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 994484005092 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 994484005093 active site 994484005094 substrate binding site [chemical binding]; other site 994484005095 catalytic site [active] 994484005096 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 994484005097 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484005098 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484005099 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 994484005100 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 994484005101 carboxyltransferase (CT) interaction site; other site 994484005102 biotinylation site [posttranslational modification]; other site 994484005103 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484005104 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484005105 active site 994484005106 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 994484005107 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484005108 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484005109 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 994484005110 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484005111 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484005112 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484005113 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...; Region: PBPb; cd00134 994484005114 substrate binding pocket [chemical binding]; other site 994484005115 membrane-bound complex binding site; other site 994484005116 hinge residues; other site 994484005117 Siderophore biosynthesis protein domain; Region: AlcB; cl11000 994484005118 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484005119 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 994484005120 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005121 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484005122 peptide synthase; Validated; Region: PRK05691 994484005123 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005124 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005125 Condensation domain; Region: Condensation; cl09290 994484005126 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484005127 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005128 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484005129 Condensation domain; Region: Condensation; cl09290 994484005130 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005131 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484005132 Condensation domain; Region: Condensation; cl09290 994484005133 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484005134 Condensation domain; Region: Condensation; cl09290 994484005135 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005136 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005137 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484005138 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484005139 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 994484005140 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide...; Region: DsbA_DsbC_DsbG; cd03020 994484005141 dimerization domain [polypeptide binding]; other site 994484005142 dimer interface [polypeptide binding]; other site 994484005143 catalytic residues [active] 994484005144 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 994484005145 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...; Region: TlpA_like_family; cd02966 994484005146 catalytic residues [active] 994484005147 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 994484005148 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 994484005149 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 994484005150 DsbD alpha interface [polypeptide binding]; other site 994484005151 catalytic residues [active] 994484005152 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 994484005153 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 994484005154 active site 994484005155 phosphorylation site [posttranslational modification] 994484005156 intermolecular recognition site; other site 994484005157 dimerization interface [polypeptide binding]; other site 994484005158 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...; Region: trans_reg_C; cd00383 994484005159 DNA binding site [nucleotide binding] 994484005160 sensor protein QseC; Provisional; Region: PRK10337 994484005161 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 trans-...; Region: HisKA; cd00082 994484005162 dimer interface [polypeptide binding]; other site 994484005163 phosphorylation site [posttranslational modification] 994484005164 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 994484005165 ATP binding site [chemical binding]; other site 994484005166 G-X-G motif; other site 994484005167 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 994484005168 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 994484005169 inhibitor-cofactor binding pocket; inhibition site 994484005170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005171 catalytic residue [active] 994484005172 MbtH-like protein; Region: MbtH; cl01279 994484005173 Domain of unknown function (DUF299); Region: DUF299; cl00780 994484005174 phosphoenolpyruvate synthase; Validated; Region: PRK06464 994484005175 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 994484005176 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 994484005177 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 994484005178 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484005179 PhaC subunit; Region: PHA_synth_III_C; TIGR01836 994484005180 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 994484005181 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 994484005182 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 994484005183 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 994484005184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005185 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484005186 Surface antigen; Region: Surface_Ag_2; cl01155 994484005187 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484005188 ligand binding site [chemical binding]; other site 994484005189 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484005190 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 994484005191 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 994484005192 [4Fe-4S] binding site [ion binding]; other site 994484005193 molybdopterin cofactor binding site; other site 994484005194 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 994484005195 molybdopterin cofactor binding site; other site 994484005196 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 994484005197 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484005198 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 994484005199 [2Fe-2S] cluster binding site [ion binding]; other site 994484005200 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 994484005201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005202 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484005203 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484005204 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484005205 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 994484005206 Active site [active] 994484005207 Catalytic domain of Protein Kinases; Region: PKc; cd00180 994484005208 active site 994484005209 ATP binding site [chemical binding]; other site 994484005210 substrate binding site [chemical binding]; other site 994484005211 Protein kinase domain; Region: Pkinase; pfam00069 994484005212 activation loop (A-loop); other site 994484005213 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 994484005214 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 994484005215 putative substrate translocation pore; other site 994484005216 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 994484005217 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 994484005218 active site 994484005219 phosphorylation site [posttranslational modification] 994484005220 intermolecular recognition site; other site 994484005221 dimerization interface [polypeptide binding]; other site 994484005222 ANTAR domain; Region: ANTAR; cl04297 994484005223 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 994484005224 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...; Region: DHOD_2_like; cd04738 994484005225 quinone interaction residues [chemical binding]; other site 994484005226 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 994484005227 active site 994484005228 catalytic residues [active] 994484005229 FMN binding site [chemical binding]; other site 994484005230 substrate binding site [chemical binding]; other site 994484005231 Ribosome modulation factor; Region: RMF; cl01207 994484005232 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 994484005233 THUMP domain; Region: THUMP; cl12076 994484005234 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; cl12011 994484005235 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 994484005236 S-adenosylmethionine binding site [chemical binding]; other site 994484005237 CHASE domain; Region: CHASE; cl01369 994484005238 PAS fold; Region: PAS; pfam00989 994484005239 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 994484005240 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484005241 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 994484005242 PAS fold; Region: PAS_3; pfam08447 994484005243 putative active site [active] 994484005244 heme pocket [chemical binding]; other site 994484005245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005246 metal binding site [ion binding]; metal-binding site 994484005247 active site 994484005248 I-site; other site 994484005249 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 994484005250 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 994484005251 Protein with unknown function (DUF469); Region: DUF469; cl01237 994484005252 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 994484005253 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484005254 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484005255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484005256 DNA-binding site [nucleotide binding]; DNA binding site 994484005257 FCD domain; Region: FCD; cl11656 994484005258 guanine deaminase; Provisional; Region: PRK09228 994484005259 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 994484005260 active site 994484005261 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 994484005262 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 994484005263 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 994484005264 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 994484005265 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484005266 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 994484005267 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 994484005268 catalytic loop [active] 994484005269 iron binding site [ion binding]; other site 994484005270 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484005271 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 994484005272 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484005273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484005274 DNA-binding site [nucleotide binding]; DNA binding site 994484005275 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 994484005276 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 994484005277 Walker A/P-loop; other site 994484005278 ATP binding site [chemical binding]; other site 994484005279 Q-loop/lid; other site 994484005280 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 994484005281 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 994484005282 ABC transporter signature motif; other site 994484005283 Walker B; other site 994484005284 D-loop; other site 994484005285 H-loop/switch region; other site 994484005286 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 994484005287 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 994484005288 FtsZ protein binding site [polypeptide binding]; other site 994484005289 Ligase N family; Region: LIGANc; smart00532 994484005290 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 994484005291 nucleotide binding pocket [chemical binding]; other site 994484005292 K-X-D-G motif; other site 994484005293 catalytic site [active] 994484005294 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 994484005295 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 994484005296 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 994484005297 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/...; Region: BRCT; cd00027 994484005298 Dimer interface [polypeptide binding]; other site 994484005299 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; cl09206 994484005300 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 994484005301 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 994484005302 non-specific DNA binding site [nucleotide binding]; other site 994484005303 salt bridge; other site 994484005304 sequence-specific DNA binding site [nucleotide binding]; other site 994484005305 PAS domain S-box; Region: sensory_box; TIGR00229 994484005306 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 994484005307 putative active site [active] 994484005308 heme pocket [chemical binding]; other site 994484005309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005310 metal binding site [ion binding]; metal-binding site 994484005311 active site 994484005312 I-site; other site 994484005313 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 994484005314 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484005315 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...; Region: PBPb; cd00134 994484005316 substrate binding pocket [chemical binding]; other site 994484005317 membrane-bound complex binding site; other site 994484005318 hinge residues; other site 994484005319 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 994484005320 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...; Region: AAA; cd00009 994484005321 Walker A motif; other site 994484005322 ATP binding site [chemical binding]; other site 994484005323 Walker B motif; other site 994484005324 arginine finger; other site 994484005325 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 994484005326 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 994484005327 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 994484005328 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 994484005329 Prostaglandin dehydrogenases; Region: PGDH; cd05288 994484005330 NAD(P) binding site [chemical binding]; other site 994484005331 substrate binding site [chemical binding]; other site 994484005332 dimer interface [polypeptide binding]; other site 994484005333 recombination protein RecR; Reviewed; Region: recR; PRK00076 994484005334 RecR protein; Region: RecR; pfam02132 994484005335 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 994484005336 putative active site [active] 994484005337 putative metal-binding site [ion binding]; other site 994484005338 tetramer interface [polypeptide binding]; other site 994484005339 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484005340 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 994484005341 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 994484005342 ligand binding site [chemical binding]; other site 994484005343 flexible hinge region; other site 994484005344 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 994484005345 putative switch regulator; other site 994484005346 non-specific DNA interactions [nucleotide binding]; other site 994484005347 DNA binding site [nucleotide binding] 994484005348 sequence specific DNA binding site [nucleotide binding]; other site 994484005349 putative cAMP binding site [chemical binding]; other site 994484005350 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 994484005351 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 994484005352 FeS/SAM binding site; other site 994484005353 HemN C-terminal region; Region: HemN_C; pfam06969 994484005354 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 994484005355 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 994484005356 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 994484005357 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484005358 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 994484005359 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484005360 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 994484005361 motif II; other site 994484005362 FixH; Region: FixH; cl01254 994484005363 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 994484005364 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484005365 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 994484005366 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 994484005367 Cytochrome c; Region: Cytochrom_C; cl11414 994484005368 Cytochrome c; Region: Cytochrom_C; cl11414 994484005369 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...; Region: cbb3_Oxidase_CcoQ; cd01324 994484005370 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 994484005371 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...; Region: cbb3_Oxidase_I; cd01661 994484005372 Low-spin heme binding site [chemical binding]; other site 994484005373 Putative water exit pathway; other site 994484005374 Binuclear center (active site) [active] 994484005375 Putative proton exit pathway; other site 994484005376 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 994484005377 Cytochrome c; Region: Cytochrom_C; cl11414 994484005378 Cytochrome c; Region: Cytochrom_C; cl11414 994484005379 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...; Region: cbb3_Oxidase_CcoQ; cl00282 994484005380 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 994484005381 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...; Region: cbb3_Oxidase_I; cd01661 994484005382 Low-spin heme binding site [chemical binding]; other site 994484005383 Putative water exit pathway; other site 994484005384 Binuclear center (active site) [active] 994484005385 Putative proton exit pathway; other site 994484005386 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 994484005387 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 994484005388 PAS fold; Region: PAS_3; pfam08447 994484005389 putative active site [active] 994484005390 heme pocket [chemical binding]; other site 994484005391 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484005392 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484005393 aconitate hydratase; Validated; Region: PRK09277 994484005394 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 994484005395 substrate binding site [chemical binding]; other site 994484005396 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 994484005397 ligand binding site [chemical binding]; other site 994484005398 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 994484005399 substrate binding site [chemical binding]; other site 994484005400 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 994484005401 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; cl12011 994484005402 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 994484005403 CPxP motif; other site 994484005404 multidrug efflux protein; Reviewed; Region: PRK01766 994484005405 MatE; Region: MatE; cl10513 994484005406 MatE; Region: MatE; cl10513 994484005407 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 994484005408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005409 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 994484005410 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 994484005411 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484005412 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 994484005413 Walker A/P-loop; other site 994484005414 ATP binding site [chemical binding]; other site 994484005415 Q-loop/lid; other site 994484005416 ABC transporter signature motif; other site 994484005417 Walker B; other site 994484005418 D-loop; other site 994484005419 H-loop/switch region; other site 994484005420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 994484005421 Integrase core domain; Region: rve; cl01316 994484005422 lytic murein transglycosylase; Provisional; Region: PRK11619 994484005423 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 994484005424 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484005425 catalytic residue [active] 994484005426 ABC transporter ATPase component; Reviewed; Region: PRK11147 994484005427 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...; Region: ABCF_EF-3; cd03221 994484005428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484005429 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...; Region: ABCF_EF-3; cd03221 994484005430 ABC transporter; Region: ABC_tran_2; pfam12848 994484005431 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...; Region: ABCF_EF-3; cd03221 994484005432 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 994484005433 Ligand Binding Site [chemical binding]; other site 994484005434 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 994484005435 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 994484005436 substrate binding site [chemical binding]; other site 994484005437 oxyanion hole (OAH) forming residues; other site 994484005438 trimer interface [polypeptide binding]; other site 994484005439 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484005440 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484005441 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 994484005442 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 994484005443 dimer interface [polypeptide binding]; other site 994484005444 active site 994484005445 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 994484005446 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 994484005447 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 994484005448 active site 994484005449 interdomain interaction site; other site 994484005450 putative metal-binding site [ion binding]; other site 994484005451 nucleotide binding site [chemical binding]; other site 994484005452 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...; Region: TOP1Ac; cd00186 994484005453 domain I; other site 994484005454 DNA binding groove [nucleotide binding] 994484005455 phosphate binding site [ion binding]; other site 994484005456 domain II; other site 994484005457 domain III; other site 994484005458 nucleotide binding site [chemical binding]; other site 994484005459 catalytic site [active] 994484005460 domain IV; other site 994484005461 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 994484005462 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 994484005463 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 994484005464 Cell division inhibitor SulA; Region: SulA; cl01880 994484005465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005466 LexA repressor; Validated; Region: PRK00215 994484005467 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 (...; Region: S24_LexA-like; cd06529 994484005468 Catalytic site [active] 994484005469 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 994484005470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484005471 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 994484005472 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 994484005473 Uncharacterized conserved protein [Function unknown]; Region: COG4715 994484005474 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 994484005475 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 994484005476 ATP binding site [chemical binding]; other site 994484005477 putative Mg++ binding site [ion binding]; other site 994484005478 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 994484005479 nucleotide binding region [chemical binding]; other site 994484005480 ATP-binding site [chemical binding]; other site 994484005481 Uncharacterized conserved protein [Function unknown]; Region: COG4715 994484005482 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 994484005483 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 994484005484 ATP binding site [chemical binding]; other site 994484005485 putative Mg++ binding site [ion binding]; other site 994484005486 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 994484005487 nucleotide binding region [chemical binding]; other site 994484005488 ATP-binding site [chemical binding]; other site 994484005489 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 994484005490 transcription-repair coupling factor; Provisional; Region: PRK10689 994484005491 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 994484005492 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 994484005493 ATP binding site [chemical binding]; other site 994484005494 putative Mg++ binding site [ion binding]; other site 994484005495 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 994484005496 nucleotide binding region [chemical binding]; other site 994484005497 ATP-binding site [chemical binding]; other site 994484005498 TRCF domain; Region: TRCF; cl04088 994484005499 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 994484005500 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 994484005501 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484005502 citrate-proton symporter; Provisional; Region: PRK15075 994484005503 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 994484005504 putative substrate translocation pore; other site 994484005505 ApbE family; Region: ApbE; cl00643 994484005506 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 994484005507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005508 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484005509 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 994484005510 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 994484005511 active site 994484005512 catalytic site [active] 994484005513 PilZ domain; Region: PilZ; cl01260 994484005514 LolC/E family; Region: lolCE; TIGR02212 994484005515 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484005516 FtsX-like permease family; Region: FtsX; pfam02687 994484005517 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 994484005518 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 994484005519 Walker A/P-loop; other site 994484005520 ATP binding site [chemical binding]; other site 994484005521 Q-loop/lid; other site 994484005522 ABC transporter signature motif; other site 994484005523 Walker B; other site 994484005524 D-loop; other site 994484005525 H-loop/switch region; other site 994484005526 LolC/E family; Region: lolCE; TIGR02212 994484005527 FtsX-like permease family; Region: FtsX; pfam02687 994484005528 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484005529 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 trans-...; Region: HisKA; cd00082 994484005530 dimer interface [polypeptide binding]; other site 994484005531 phosphorylation site [posttranslational modification] 994484005532 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 994484005533 ATP binding site [chemical binding]; other site 994484005534 Mg2+ binding site [ion binding]; other site 994484005535 G-X-G motif; other site 994484005536 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 994484005537 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 994484005538 active site 994484005539 phosphorylation site [posttranslational modification] 994484005540 intermolecular recognition site; other site 994484005541 dimerization interface [polypeptide binding]; other site 994484005542 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...; Region: trans_reg_C; cd00383 994484005543 DNA binding site [nucleotide binding] 994484005544 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484005545 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 994484005546 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 994484005547 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; cl11391 994484005548 VacJ like lipoprotein; Region: VacJ; cl01073 994484005549 Response regulator receiver domain; Region: Response_reg; pfam00072 994484005550 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 994484005551 active site 994484005552 phosphorylation site [posttranslational modification] 994484005553 intermolecular recognition site; other site 994484005554 dimerization interface [polypeptide binding]; other site 994484005555 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 994484005556 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 994484005557 anti sigma factor interaction site; other site 994484005558 regulatory phosphorylation site [posttranslational modification]; other site 994484005559 transaldolase-like protein; Provisional; Region: PTZ00411 994484005560 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 994484005561 active site 994484005562 dimer interface [polypeptide binding]; other site 994484005563 catalytic residue [active] 994484005564 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 994484005565 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...; Region: DUS_like_FMN; cd02801 994484005566 FMN binding site [chemical binding]; other site 994484005567 active site 994484005568 catalytic residues [active] 994484005569 substrate binding site [chemical binding]; other site 994484005570 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 994484005571 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 994484005572 active site 994484005573 metal binding site [ion binding]; metal-binding site 994484005574 Fic/DOC family; Region: Fic; cl00960 994484005575 cell density-dependent motility repressor; Provisional; Region: PRK10082 994484005576 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005577 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 994484005578 dimerization interface [polypeptide binding]; other site 994484005579 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484005580 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484005581 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484005582 aspartate racemase; Region: asp_race; TIGR00035 994484005583 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484005584 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484005585 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484005586 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484005587 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 994484005588 putative NAD(P) binding site [chemical binding]; other site 994484005589 putative substrate binding site [chemical binding]; other site 994484005590 catalytic Zn binding site [ion binding]; other site 994484005591 structural Zn binding site [ion binding]; other site 994484005592 dimer interface [polypeptide binding]; other site 994484005593 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 994484005594 putative substrate translocation pore; other site 994484005595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484005597 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 994484005598 Chromate transporter; Region: Chromate_transp; pfam02417 994484005599 Chromate transporter; Region: Chromate_transp; pfam02417 994484005600 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 994484005601 B1 nucleotide binding pocket [chemical binding]; other site 994484005602 B2 nucleotide binding pocket [chemical binding]; other site 994484005603 CAS motifs; other site 994484005604 Active site [active] 994484005605 Cache domain; Region: Cache_1; pfam02743 994484005606 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005607 metal binding site [ion binding]; metal-binding site 994484005608 active site 994484005609 I-site; other site 994484005610 CHASE4 domain; Region: CHASE4; cl01308 994484005611 PAS domain S-box; Region: sensory_box; TIGR00229 994484005612 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 994484005613 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484005614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005615 metal binding site [ion binding]; metal-binding site 994484005616 active site 994484005617 I-site; other site 994484005618 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 994484005619 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 994484005620 putative phosphate binding site [ion binding]; other site 994484005621 putative catalytic site [active] 994484005622 active site 994484005623 metal binding site A [ion binding]; metal-binding site 994484005624 DNA binding site [nucleotide binding] 994484005625 putative AP binding site [nucleotide binding]; other site 994484005626 putative metal binding site B [ion binding]; other site 994484005627 N-acetyltransferase; Region: Acetyltransf_2; cl00949 994484005628 Permease family; Region: Xan_ur_permease; pfam00860 994484005629 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484005630 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 994484005631 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 994484005632 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484005633 shikimate binding site; other site 994484005634 NAD(P) binding site [chemical binding]; other site 994484005635 Protein of unknown function, DUF480; Region: DUF480; cl01209 994484005636 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 994484005637 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484005638 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484005639 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 994484005640 putative substrate translocation pore; other site 994484005641 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 994484005642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005643 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 994484005644 putative dimerization interface [polypeptide binding]; other site 994484005645 Integral membrane protein TerC family; Region: TerC; cl10468 994484005646 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 (mostly non-lantibiotic). The...; Region: Peptidase_C39_like; cl00296 994484005647 putative active site [active] 994484005648 Beta-lactamase; Region: Beta-lactamase; cl01009 994484005649 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 994484005650 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 994484005651 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 994484005652 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 994484005653 homodimer interface [polypeptide binding]; other site 994484005654 NADP binding site [chemical binding]; other site 994484005655 substrate binding site [chemical binding]; other site 994484005656 trigger factor; Provisional; Region: tig; PRK01490 994484005657 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484005658 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 994484005659 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 994484005660 oligomer interface [polypeptide binding]; other site 994484005661 active site residues [active] 994484005662 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 994484005663 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 994484005664 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...; Region: AAA; cd00009 994484005665 Walker A motif; other site 994484005666 ATP binding site [chemical binding]; other site 994484005667 Walker B motif; other site 994484005668 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 994484005669 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 994484005670 Found in ATP-dependent protease La (LON); Region: LON; smart00464 994484005671 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...; Region: AAA; cd00009 994484005672 Walker A motif; other site 994484005673 ATP binding site [chemical binding]; other site 994484005674 Walker B motif; other site 994484005675 arginine finger; other site 994484005676 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484005677 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 higher-...; Region: HU_IHF; cd00591 994484005678 IHF - DNA interface [nucleotide binding]; other site 994484005679 IHF dimer interface [polypeptide binding]; other site 994484005680 periplasmic folding chaperone; Provisional; Region: PRK10788 994484005681 SurA N-terminal domain; Region: SurA_N; pfam09312 994484005682 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484005683 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 994484005684 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484005685 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484005686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484005687 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 994484005688 active site 994484005689 catalytic triad [active] 994484005690 dimer interface [polypeptide binding]; other site 994484005691 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 994484005692 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484005693 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 994484005694 active site 994484005695 FMN binding site [chemical binding]; other site 994484005696 2,4-decadienoyl-CoA binding site; other site 994484005697 catalytic residue [active] 994484005698 4Fe-4S cluster binding site [ion binding]; other site 994484005699 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 994484005700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005701 D-cysteine desulfhydrase; Validated; Region: PRK03910 994484005702 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 994484005703 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484005704 catalytic residue [active] 994484005705 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 994484005706 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484005707 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484005708 Domain of unknown function DUF28; Region: DUF28; cl00361 994484005709 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 994484005710 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 994484005711 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484005712 active site 994484005713 ATP binding site [chemical binding]; other site 994484005714 substrate binding site [chemical binding]; other site 994484005715 activation loop (A-loop); other site 994484005716 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 994484005717 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 994484005718 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484005719 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484005720 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484005721 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484005722 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484005723 dimer interface [polypeptide binding]; other site 994484005724 conserved gate region; other site 994484005725 putative PBP binding loops; other site 994484005726 ABC-ATPase subunit interface; other site 994484005727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484005728 dimer interface [polypeptide binding]; other site 994484005729 conserved gate region; other site 994484005730 putative PBP binding loops; other site 994484005731 ABC-ATPase subunit interface; other site 994484005732 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484005733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484005734 Walker A/P-loop; other site 994484005735 ATP binding site [chemical binding]; other site 994484005736 Q-loop/lid; other site 994484005737 ABC transporter signature motif; other site 994484005738 Walker B; other site 994484005739 D-loop; other site 994484005740 H-loop/switch region; other site 994484005741 TOBE domain; Region: TOBE_2; cl01440 994484005742 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005743 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484005744 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484005745 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 994484005746 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005747 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484005748 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 994484005749 putative heme binding pocket [chemical binding]; other site 994484005750 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 994484005751 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 994484005752 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 994484005753 active site 994484005754 Zn-binding site [ion binding]; other site 994484005755 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484005756 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 994484005757 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 (...; Region: S24_LexA-like; cd06529 994484005758 Catalytic site [active] 994484005759 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 994484005760 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484005761 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484005762 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 994484005763 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 994484005764 carboxyltransferase (CT) interaction site; other site 994484005765 biotinylation site [posttranslational modification]; other site 994484005766 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 994484005767 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 994484005768 substrate binding site [chemical binding]; other site 994484005769 oxyanion hole (OAH) forming residues; other site 994484005770 trimer interface [polypeptide binding]; other site 994484005771 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 994484005772 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484005773 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484005774 isovaleryl-CoA dehydrogenase; Region: PLN02519 994484005775 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 994484005776 substrate binding site [chemical binding]; other site 994484005777 FAD binding site [chemical binding]; other site 994484005778 catalytic base [active] 994484005779 AMP-binding domain protein; Validated; Region: PRK08315 994484005780 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484005781 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 994484005782 active site 994484005783 catalytic residues [active] 994484005784 metal binding site [ion binding]; metal-binding site 994484005785 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 994484005786 DNA binding residues [nucleotide binding] 994484005787 putative dimer interface [polypeptide binding]; other site 994484005788 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 994484005789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005790 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 994484005791 substrate binding pocket [chemical binding]; other site 994484005792 dimerization interface [polypeptide binding]; other site 994484005793 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484005794 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 994484005795 FAD binding site [chemical binding]; other site 994484005796 substrate binding site [chemical binding]; other site 994484005797 catalytic base [active] 994484005798 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 994484005799 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 994484005800 tetramer interface [polypeptide binding]; other site 994484005801 active site 994484005802 Mg2+/Mn2+ binding site [ion binding]; other site 994484005803 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484005804 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 994484005805 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484005806 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 994484005807 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484005808 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484005809 N-formylglutamate amidohydrolase; Region: FGase; cl01522 994484005810 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484005811 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484005812 Isochorismatase family; Region: Isochorismatase; pfam00857 994484005813 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 994484005814 catalytic triad [active] 994484005815 conserved cis-peptide bond; other site 994484005816 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484005817 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...; Region: SIS_RpiR; cd05013 994484005818 putative active site [active] 994484005819 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 994484005820 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 994484005821 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484005822 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 994484005823 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484005824 conserved cys residue [active] 994484005825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484005826 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 994484005827 active site residue [active] 994484005828 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484005829 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...; Region: PBPb; cd00134 994484005830 substrate binding pocket [chemical binding]; other site 994484005831 membrane-bound complex binding site; other site 994484005832 hinge residues; other site 994484005833 Predicted deacylase [General function prediction only]; Region: COG3608 994484005834 An uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the the M14 family of metallocarboxypeptidases. This subgroup includes Pseudomonas aeruginosa AotO and related proteins. ASTE...; Region: M14_PaAOTO_like; cd06250 994484005835 putative active site [active] 994484005836 Zn-binding site [ion binding]; other site 994484005837 Predicted esterase [General function prediction only]; Region: COG0400 994484005838 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 994484005839 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 994484005840 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 994484005841 selenophosphate synthetase; Provisional; Region: PRK00943 994484005842 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 994484005843 dimerization interface [polypeptide binding]; other site 994484005844 putative ATP binding site [chemical binding]; other site 994484005845 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 994484005846 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 994484005847 active site residue [active] 994484005848 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 994484005849 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...; Region: GST_N_Ure2p_like; cd03048 994484005850 C-terminal domain interface [polypeptide binding]; other site 994484005851 GSH binding site (G-site) [chemical binding]; other site 994484005852 dimer interface [polypeptide binding]; other site 994484005853 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 994484005854 dimer interface [polypeptide binding]; other site 994484005855 N-terminal domain interface [polypeptide binding]; other site 994484005856 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 994484005857 dimer interface [polypeptide binding]; other site 994484005858 active site 994484005859 Schiff base residues; other site 994484005860 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 994484005861 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484005862 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484005863 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 994484005864 dimer interface [polypeptide binding]; other site 994484005865 N-terminal domain interface [polypeptide binding]; other site 994484005866 substrate binding pocket (H-site) [chemical binding]; other site 994484005867 Protein of unknown function (DUF330); Region: DUF330; cl01135 994484005868 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 994484005869 mce related protein; Region: MCE; pfam02470 994484005870 mce related protein; Region: MCE; pfam02470 994484005871 mce related protein; Region: MCE; pfam02470 994484005872 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484005873 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484005874 FOG: CBS domain [General function prediction only]; Region: COG0517 994484005875 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-...; Region: CBS_pair_10; cd04623 994484005876 DNA polymerase II; Reviewed; Region: PRK05762 994484005877 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 994484005878 active site 994484005879 catalytic site [active] 994484005880 substrate binding site [chemical binding]; other site 994484005881 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 994484005882 active site 994484005883 metal-binding site 994484005884 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...; Region: Aldo_ket_red; cd06660 994484005885 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484005886 active site 994484005887 catalytic tetrad [active] 994484005888 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 994484005889 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 994484005890 active site 994484005891 catalytic residues [active] 994484005892 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484005893 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484005894 Beta-lactamase; Region: Beta-lactamase; cl01009 994484005895 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484005896 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 994484005897 short chain dehydrogenase; Provisional; Region: PRK06123 994484005898 classical (c) SDRs; Region: SDR_c; cd05233 994484005899 NAD(P) binding site [chemical binding]; other site 994484005900 active site 994484005901 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 994484005902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484005903 DNA-binding site [nucleotide binding]; DNA binding site 994484005904 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 994484005905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005906 homodimer interface [polypeptide binding]; other site 994484005907 catalytic residue [active] 994484005908 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 994484005909 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 994484005910 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 994484005911 MgtC family; Region: MgtC; cl12207 994484005912 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 994484005913 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484005914 trehalose synthase; Region: treS_nterm; TIGR02456 994484005915 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484005916 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 994484005917 glycogen branching enzyme; Provisional; Region: PRK05402 994484005918 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 994484005919 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484005920 LOTUS is an uncharacterized small globular domain found in Limkain b1, Oskar and Tudor-containing proteins 5 and 7; Region: LOTUS; cl14879 994484005921 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 994484005922 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 994484005923 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 994484005924 active site 994484005925 tetramer interface [polypeptide binding]; other site 994484005926 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 994484005927 D-galactonate transporter; Region: 2A0114; TIGR00893 994484005928 putative substrate translocation pore; other site 994484005929 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484005930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484005931 DNA-binding site [nucleotide binding]; DNA binding site 994484005932 FCD domain; Region: FCD; cl11656 994484005933 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 994484005934 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 994484005935 dimer interface [polypeptide binding]; other site 994484005936 active site 994484005937 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 994484005938 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 994484005939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484005940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005941 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 994484005942 putative dimerization interface [polypeptide binding]; other site 994484005943 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/...; Region: SIRT4; cd01409 994484005944 NAD+ binding site [chemical binding]; other site 994484005945 substrate binding site [chemical binding]; other site 994484005946 Zn binding site [ion binding]; other site 994484005947 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 994484005948 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 994484005949 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 994484005950 Glutaminase; Region: Glutaminase; cl00907 994484005951 DNA topoisomerase III; Provisional; Region: PRK07726 994484005952 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 994484005953 active site 994484005954 putative interdomain interaction site [polypeptide binding]; other site 994484005955 putative metal-binding site [ion binding]; other site 994484005956 putative nucleotide binding site [chemical binding]; other site 994484005957 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...; Region: TOP1Ac; cd00186 994484005958 domain I; other site 994484005959 DNA binding groove [nucleotide binding] 994484005960 phosphate binding site [ion binding]; other site 994484005961 domain II; other site 994484005962 domain III; other site 994484005963 nucleotide binding site [chemical binding]; other site 994484005964 catalytic site [active] 994484005965 domain IV; other site 994484005966 Response regulator receiver domain; Region: Response_reg; pfam00072 994484005967 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 994484005968 active site 994484005969 phosphorylation site [posttranslational modification] 994484005970 intermolecular recognition site; other site 994484005971 dimerization interface [polypeptide binding]; other site 994484005972 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 994484005973 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005974 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484005975 fec operon regulator FecR; Reviewed; Region: PRK09774 994484005976 FecR protein; Region: FecR; pfam04773 994484005977 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484005978 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 994484005979 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 994484005980 N-terminal plug; other site 994484005981 ligand-binding site [chemical binding]; other site 994484005982 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 994484005983 putative substrate translocation pore; other site 994484005984 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484005985 choline dehydrogenase; Validated; Region: PRK02106 994484005986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005987 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484005988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484005989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484005990 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 994484005991 dimerization interface [polypeptide binding]; other site 994484005992 Cytochrome c; Region: Cytochrom_C; cl11414 994484005993 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 994484005994 FAD binding domain; Region: FAD_binding_4; pfam01565 994484005995 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 994484005996 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 994484005997 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484005998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484005999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006000 LexA repressor; Provisional; Region: PRK12423 994484006001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006002 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 (...; Region: S24_LexA-like; cd06529 994484006003 Catalytic site [active] 994484006004 Cell division inhibitor SulA; Region: SulA; cl01880 994484006005 DNA Polymerase Y-family; Region: PolY_like; cd03468 994484006006 active site 994484006007 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 994484006008 DNA binding site [nucleotide binding] 994484006009 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 994484006010 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 994484006011 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 994484006012 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...; Region: DnaE_OBF; cd04485 994484006013 generic binding surface I; other site 994484006014 generic binding surface II; other site 994484006015 putative diguanylate cyclase; Provisional; Region: PRK09776 994484006016 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 994484006017 putative active site [active] 994484006018 heme pocket [chemical binding]; other site 994484006019 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484006020 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 trans-...; Region: HisKA; cd00082 994484006021 dimer interface [polypeptide binding]; other site 994484006022 phosphorylation site [posttranslational modification] 994484006023 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 994484006024 ATP binding site [chemical binding]; other site 994484006025 G-X-G motif; other site 994484006026 Response regulator receiver domain; Region: Response_reg; pfam00072 994484006027 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 994484006028 active site 994484006029 phosphorylation site [posttranslational modification] 994484006030 intermolecular recognition site; other site 994484006031 dimerization interface [polypeptide binding]; other site 994484006032 Predicted outer membrane protein [Function unknown]; Region: COG3652 994484006033 Protein of unknown function (DUF465); Region: DUF465; cl01070 994484006034 transcriptional regulator HdfR; Provisional; Region: PRK03601 994484006035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006036 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 994484006037 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 994484006038 putative active site [active] 994484006039 putative substrate binding site [chemical binding]; other site 994484006040 putative cosubstrate binding site; other site 994484006041 catalytic site [active] 994484006042 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 994484006043 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 994484006044 substrate binding site [chemical binding]; other site 994484006045 oxyanion hole (OAH) forming residues; other site 994484006046 trimer interface [polypeptide binding]; other site 994484006047 SCP-2 sterol transfer family; Region: SCP2; cl01225 994484006048 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 994484006049 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 994484006050 catalytic core [active] 994484006051 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 994484006052 putative inner membrane peptidase; Provisional; Region: PRK11778 994484006053 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 994484006054 tandem repeat interface [polypeptide binding]; other site 994484006055 oligomer interface [polypeptide binding]; other site 994484006056 active site residues [active] 994484006057 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 994484006058 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 994484006059 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484006060 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484006061 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 994484006062 putative ligand binding site [chemical binding]; other site 994484006063 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 994484006064 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 994484006065 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 994484006066 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 994484006067 substrate binding pocket [chemical binding]; other site 994484006068 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 994484006069 B12 binding site [chemical binding]; other site 994484006070 cobalt ligand [ion binding]; other site 994484006071 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 994484006072 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 994484006073 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 994484006074 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 994484006075 NifU-like domain; Region: NifU; cl00484 994484006076 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484006077 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 994484006078 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 994484006079 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 994484006080 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 994484006081 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484006082 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 994484006083 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 994484006084 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 994484006085 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...; Region: AAA; cd00009 994484006086 Walker A motif; other site 994484006087 ATP binding site [chemical binding]; other site 994484006088 Walker B motif; other site 994484006089 arginine finger; other site 994484006090 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 994484006091 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 994484006092 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 994484006093 putative active site [active] 994484006094 catalytic site [active] 994484006095 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 994484006096 putative active site [active] 994484006097 catalytic site [active] 994484006098 Phd_YefM; Region: PhdYeFM; cl09153 994484006099 hypothetical protein; Provisional; Region: PRK10040 994484006100 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484006101 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...; Region: PBPb; cd00134 994484006102 substrate binding pocket [chemical binding]; other site 994484006103 membrane-bound complex binding site; other site 994484006104 hinge residues; other site 994484006105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006106 dimer interface [polypeptide binding]; other site 994484006107 conserved gate region; other site 994484006108 putative PBP binding loops; other site 994484006109 ABC-ATPase subunit interface; other site 994484006110 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484006111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006112 dimer interface [polypeptide binding]; other site 994484006113 conserved gate region; other site 994484006114 putative PBP binding loops; other site 994484006115 ABC-ATPase subunit interface; other site 994484006116 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484006117 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484006118 Walker A/P-loop; other site 994484006119 ATP binding site [chemical binding]; other site 994484006120 Q-loop/lid; other site 994484006121 ABC transporter signature motif; other site 994484006122 Walker B; other site 994484006123 D-loop; other site 994484006124 H-loop/switch region; other site 994484006125 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 994484006126 homotrimer interaction site [polypeptide binding]; other site 994484006127 putative active site [active] 994484006128 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484006129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006130 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484006131 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 994484006132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 994484006133 dimer interface [polypeptide binding]; other site 994484006134 active site 994484006135 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484006136 substrate binding site [chemical binding]; other site 994484006137 catalytic residue [active] 994484006138 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 994484006139 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 994484006140 substrate binding site [chemical binding]; other site 994484006141 ATP binding site [chemical binding]; other site 994484006142 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484006143 PAS fold; Region: PAS_4; pfam08448 994484006144 putative diguanylate cyclase; Provisional; Region: PRK09776 994484006145 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484006146 PAS fold; Region: PAS_4; pfam08448 994484006147 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 994484006148 putative active site [active] 994484006149 heme pocket [chemical binding]; other site 994484006150 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 trans-...; Region: HisKA; cd00082 994484006151 dimer interface [polypeptide binding]; other site 994484006152 phosphorylation site [posttranslational modification] 994484006153 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 994484006154 ATP binding site [chemical binding]; other site 994484006155 Mg2+ binding site [ion binding]; other site 994484006156 G-X-G motif; other site 994484006157 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484006158 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 994484006159 active site 994484006160 phosphorylation site [posttranslational modification] 994484006161 intermolecular recognition site; other site 994484006162 dimerization interface [polypeptide binding]; other site 994484006163 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 994484006164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484006165 Walker A motif; other site 994484006166 ATP binding site [chemical binding]; other site 994484006167 Walker B motif; other site 994484006168 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 994484006169 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 994484006170 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484006171 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 994484006172 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 994484006173 NAD binding site [chemical binding]; other site 994484006174 homotetramer interface [polypeptide binding]; other site 994484006175 homodimer interface [polypeptide binding]; other site 994484006176 substrate binding site [chemical binding]; other site 994484006177 active site 994484006178 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 994484006179 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 994484006180 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 994484006181 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...; Region: AAA; cd00009 994484006182 Walker B motif; other site 994484006183 arginine finger; other site 994484006184 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484006185 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 994484006186 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 994484006187 Walker A/P-loop; other site 994484006188 ATP binding site [chemical binding]; other site 994484006189 Q-loop/lid; other site 994484006190 ABC transporter signature motif; other site 994484006191 Walker B; other site 994484006192 D-loop; other site 994484006193 H-loop/switch region; other site 994484006194 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006195 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 994484006196 Walker A/P-loop; other site 994484006197 ATP binding site [chemical binding]; other site 994484006198 Q-loop/lid; other site 994484006199 ABC transporter signature motif; other site 994484006200 Walker B; other site 994484006201 D-loop; other site 994484006202 H-loop/switch region; other site 994484006203 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006205 dimer interface [polypeptide binding]; other site 994484006206 conserved gate region; other site 994484006207 putative PBP binding loops; other site 994484006208 ABC-ATPase subunit interface; other site 994484006209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006210 dimer interface [polypeptide binding]; other site 994484006211 conserved gate region; other site 994484006212 putative PBP binding loops; other site 994484006213 ABC-ATPase subunit interface; other site 994484006214 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 994484006215 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484006216 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484006217 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 994484006218 NeuB family; Region: NeuB; cl00496 994484006219 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 994484006220 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484006221 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 994484006222 active site 994484006223 catalytic triad [active] 994484006224 dimer interface [polypeptide binding]; other site 994484006225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484006226 response regulator; Provisional; Region: PRK09483 994484006227 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 994484006228 active site 994484006229 phosphorylation site [posttranslational modification] 994484006230 intermolecular recognition site; other site 994484006231 dimerization interface [polypeptide binding]; other site 994484006232 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...; Region: LuxR_C_like; cd06170 994484006233 DNA binding residues [nucleotide binding] 994484006234 dimerization interface [polypeptide binding]; other site 994484006235 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 994484006236 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 994484006237 GIY-YIG motif/motif A; other site 994484006238 active site 994484006239 catalytic site [active] 994484006240 putative DNA binding site [nucleotide binding]; other site 994484006241 metal binding site [ion binding]; metal-binding site 994484006242 UvrB/uvrC motif; Region: UVR; pfam02151 994484006243 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 994484006244 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 994484006245 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 994484006246 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 994484006247 active site 994484006248 substrate binding site [chemical binding]; other site 994484006249 Mg2+ binding site [ion binding]; other site 994484006250 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484006251 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 994484006252 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 994484006253 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 994484006254 TraU protein; Region: TraU; cl06067 994484006255 hypothetical protein; Provisional; Region: PRK08317 994484006256 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 994484006257 S-adenosylmethionine binding site [chemical binding]; other site 994484006258 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 994484006259 MPN+ (JAMM) motif; other site 994484006260 Zinc-binding site [ion binding]; other site 994484006261 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 994484006262 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 994484006263 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 994484006264 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 994484006265 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 994484006266 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 994484006267 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 994484006268 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 994484006269 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl09893 994484006270 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 994484006271 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 994484006272 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 994484006273 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 994484006274 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 994484006275 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 994484006276 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 994484006277 DNA topoisomerase III; Provisional; Region: PRK07726 994484006278 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 994484006279 active site 994484006280 putative interdomain interaction site [polypeptide binding]; other site 994484006281 putative metal-binding site [ion binding]; other site 994484006282 putative nucleotide binding site [chemical binding]; other site 994484006283 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...; Region: TOP1Ac; cd00186 994484006284 domain I; other site 994484006285 DNA binding groove [nucleotide binding] 994484006286 phosphate binding site [ion binding]; other site 994484006287 domain II; other site 994484006288 domain III; other site 994484006289 nucleotide binding site [chemical binding]; other site 994484006290 catalytic site [active] 994484006291 domain IV; other site 994484006292 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 994484006293 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 994484006294 ssDNA binding site [nucleotide binding]; other site 994484006295 dimer interface [polypeptide binding]; other site 994484006296 tetramer (dimer of dimers) interface [polypeptide binding]; other site 994484006297 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 994484006298 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 994484006299 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 994484006300 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 994484006301 ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 994484006302 ParB-like nuclease domain; Region: ParBc; cl02129 994484006303 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 994484006304 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 994484006305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006306 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 994484006307 dimerization interface [polypeptide binding]; other site 994484006308 substrate binding pocket [chemical binding]; other site 994484006309 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484006310 short chain dehydrogenase; Provisional; Region: PRK12937 994484006311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006312 NAD(P) binding site [chemical binding]; other site 994484006313 active site 994484006314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006316 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 994484006317 putative effector binding pocket; other site 994484006318 putative dimerization interface [polypeptide binding]; other site 994484006319 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 5,10-...; Region: DHFR; cl00161 994484006320 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 994484006321 S-adenosylmethionine binding site [chemical binding]; other site 994484006322 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484006323 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484006324 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484006325 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; cl11391 994484006326 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484006327 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484006328 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484006329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006330 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 994484006331 dimerization interface [polypeptide binding]; other site 994484006332 substrate binding pocket [chemical binding]; other site 994484006333 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 994484006334 putative substrate binding site [chemical binding]; other site 994484006335 putative ATP binding site [chemical binding]; other site 994484006336 Cupin domain; Region: Cupin_2; cl09118 994484006337 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484006338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006339 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484006340 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 994484006341 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006342 dimer interface [polypeptide binding]; other site 994484006343 conserved gate region; other site 994484006344 putative PBP binding loops; other site 994484006345 ABC-ATPase subunit interface; other site 994484006346 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484006347 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006348 dimer interface [polypeptide binding]; other site 994484006349 conserved gate region; other site 994484006350 putative PBP binding loops; other site 994484006351 ABC-ATPase subunit interface; other site 994484006352 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484006353 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 994484006354 Walker A/P-loop; other site 994484006355 ATP binding site [chemical binding]; other site 994484006356 Q-loop/lid; other site 994484006357 ABC transporter signature motif; other site 994484006358 Walker B; other site 994484006359 D-loop; other site 994484006360 H-loop/switch region; other site 994484006361 TOBE domain; Region: TOBE_2; cl01440 994484006362 sorbitol dehydrogenase; Provisional; Region: PRK07067 994484006363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006364 NAD(P) binding site [chemical binding]; other site 994484006365 active site 994484006366 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484006367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006368 TLC ATP/ADP transporter; Region: TLC; cl03940 994484006369 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484006370 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 994484006371 putative NAD(P) binding site [chemical binding]; other site 994484006372 active site 994484006373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006375 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 994484006376 putative effector binding pocket; other site 994484006377 putative dimerization interface [polypeptide binding]; other site 994484006378 Domain of unknown function (DUF369); Region: DUF369; cl00950 994484006379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006380 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006381 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 994484006382 putative effector binding pocket; other site 994484006383 putative dimerization interface [polypeptide binding]; other site 994484006384 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 994484006385 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 994484006386 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 994484006387 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 994484006388 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484006389 NodT family; Region: outer_NodT; TIGR01845 994484006390 Outer membrane efflux protein; Region: OEP; pfam02321 994484006391 Outer membrane efflux protein; Region: OEP; pfam02321 994484006392 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 994484006393 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 994484006394 FeS/SAM binding site; other site 994484006395 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 994484006396 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 994484006397 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 994484006398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484006399 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 994484006400 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 994484006401 tricarballylate utilization protein B; Provisional; Region: PRK15033 994484006402 tricarballylate dehydrogenase; Validated; Region: PRK08274 994484006403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006404 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 994484006405 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 994484006406 Trp docking motif; other site 994484006407 active site 994484006408 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 994484006409 'Velcro' closure; other site 994484006410 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 994484006411 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 994484006412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006413 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 994484006414 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 994484006415 catalytic loop [active] 994484006416 iron binding site [ion binding]; other site 994484006417 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 994484006418 FAD binding pocket [chemical binding]; other site 994484006419 FAD binding motif [chemical binding]; other site 994484006420 phosphate binding motif [ion binding]; other site 994484006421 beta-alpha-beta structure motif; other site 994484006422 NAD binding pocket [chemical binding]; other site 994484006423 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 994484006424 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 994484006425 substrate binding site [chemical binding]; other site 994484006426 oxyanion hole (OAH) forming residues; other site 994484006427 trimer interface [polypeptide binding]; other site 994484006428 enoyl-CoA hydratase; Provisional; Region: PRK06688 994484006429 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 994484006430 substrate binding site [chemical binding]; other site 994484006431 oxyanion hole (OAH) forming residues; other site 994484006432 trimer interface [polypeptide binding]; other site 994484006433 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006435 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 994484006436 putative dimerization interface [polypeptide binding]; other site 994484006437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006438 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484006439 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484006440 Cache domain; Region: Cache_1; pfam02743 994484006441 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 994484006442 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484006443 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484006444 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484006445 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 994484006446 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484006447 putative substrate translocation pore; other site 994484006448 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 994484006449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006450 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 994484006451 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484006452 putative NAD(P) binding site [chemical binding]; other site 994484006453 putative active site [active] 994484006454 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 994484006455 putative active site [active] 994484006456 putative metal binding site [ion binding]; other site 994484006457 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484006458 classical (c) SDRs; Region: SDR_c; cd05233 994484006459 NAD(P) binding site [chemical binding]; other site 994484006460 active site 994484006461 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 994484006462 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 994484006463 DUF35 OB-fold domain; Region: DUF35; pfam01796 994484006464 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 994484006465 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 3-ketacyl-; Region: SCP-x_thiolase; cd00829 994484006466 active site 994484006467 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 994484006468 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 994484006469 substrate binding site [chemical binding]; other site 994484006470 oxyanion hole (OAH) forming residues; other site 994484006471 trimer interface [polypeptide binding]; other site 994484006472 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484006473 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484006474 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484006475 Rubredoxin [Energy production and conversion]; Region: COG1773 994484006476 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...; Region: rubredoxin; cd00730 994484006477 iron binding site [ion binding]; other site 994484006478 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484006479 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484006480 tetramerization interface [polypeptide binding]; other site 994484006481 NAD(P) binding site [chemical binding]; other site 994484006482 catalytic residues [active] 994484006483 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484006484 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; cl11420 994484006485 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484006486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006487 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 994484006488 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 994484006489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006490 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006491 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 994484006492 putative effector binding pocket; other site 994484006493 putative dimerization interface [polypeptide binding]; other site 994484006494 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484006495 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 994484006496 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484006497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006499 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 994484006500 putative dimerization interface [polypeptide binding]; other site 994484006501 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 994484006502 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 994484006503 putative substrate translocation pore; other site 994484006504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006506 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 994484006507 putative effector binding pocket; other site 994484006508 putative dimerization interface [polypeptide binding]; other site 994484006509 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484006510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006511 choline dehydrogenase; Validated; Region: PRK02106 994484006512 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484006513 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 994484006514 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484006515 NAD binding site [chemical binding]; other site 994484006516 catalytic residues [active] 994484006517 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484006518 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 994484006519 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484006520 nitrous-oxide reductase; Validated; Region: PRK02888 994484006521 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484006522 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 994484006523 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484006524 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484006525 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484006526 Cytochrome c; Region: Cytochrom_C; cl11414 994484006527 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 994484006528 putative active site [active] 994484006529 putative metal binding site [ion binding]; other site 994484006530 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...; Region: Aldo_ket_red; cd06660 994484006531 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484006532 active site 994484006533 catalytic tetrad [active] 994484006534 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484006535 classical (c) SDRs; Region: SDR_c; cd05233 994484006536 NAD(P) binding site [chemical binding]; other site 994484006537 active site 994484006538 Domain of unknown function (DUF369); Region: DUF369; cl00950 994484006539 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 994484006540 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484006541 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 994484006542 putative heme binding pocket [chemical binding]; other site 994484006543 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 994484006544 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 994484006545 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 994484006546 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 994484006547 RES domain; Region: RES; cl02411 994484006548 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 994484006549 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 994484006550 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 994484006551 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 994484006552 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 994484006553 [4Fe-4S] binding site [ion binding]; other site 994484006554 molybdopterin cofactor binding site; other site 994484006555 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 994484006556 molybdopterin cofactor binding site; other site 994484006557 NapD protein; Region: NapD; cl01163 994484006558 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 994484006559 Nitrate and nitrite sensing; Region: NIT; pfam08376 994484006560 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484006561 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484006562 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484006563 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 994484006564 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 994484006565 metal ion-dependent adhesion site (MIDAS); other site 994484006566 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...; Region: AAA; cd00009 994484006567 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 994484006568 Walker A motif; other site 994484006569 ATP binding site [chemical binding]; other site 994484006570 Walker B motif; other site 994484006571 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 994484006572 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...; Region: Heme_Cu_Oxidase_I; cl00275 994484006573 Low-spin heme binding site [chemical binding]; other site 994484006574 D-pathway; other site 994484006575 Binuclear center (active site) [active] 994484006576 K-pathway; other site 994484006577 Putative proton exit pathway; other site 994484006578 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...; Region: Heme_Cu_Oxidase_I; cl00275 994484006579 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 994484006580 Cytochrome c; Region: Cytochrom_C; cl11414 994484006581 Cytochrome c; Region: Cytochrom_C; cl11414 994484006582 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 994484006583 FMN-binding domain; Region: FMN_bind; cl01081 994484006584 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 994484006585 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484006586 nitrous-oxide reductase; Validated; Region: PRK02888 994484006587 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484006588 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 994484006589 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 994484006590 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 994484006591 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 994484006592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484006593 Walker A/P-loop; other site 994484006594 ATP binding site [chemical binding]; other site 994484006595 Q-loop/lid; other site 994484006596 ABC transporter signature motif; other site 994484006597 Walker B; other site 994484006598 D-loop; other site 994484006599 H-loop/switch region; other site 994484006600 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 994484006601 NosL; Region: NosL; cl01769 994484006602 Cytochrome c; Region: Cytochrom_C; cl11414 994484006603 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 994484006604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006605 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 994484006606 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484006607 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484006608 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...; Region: rubredoxin; cd00730 994484006609 iron binding site [ion binding]; other site 994484006610 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 994484006611 GAF domain; Region: GAF; cl00853 994484006612 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...; Region: AAA; cd00009 994484006613 Walker A motif; other site 994484006614 ATP binding site [chemical binding]; other site 994484006615 Walker B motif; other site 994484006616 arginine finger; other site 994484006617 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; cl01116 994484006618 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 994484006619 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 994484006620 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 994484006621 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 994484006622 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 994484006623 active site/substrate binding site [active] 994484006624 tetramer interface [polypeptide binding]; other site 994484006625 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 994484006626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006627 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 994484006628 dimerization interface [polypeptide binding]; other site 994484006629 substrate binding pocket [chemical binding]; other site 994484006630 Isochorismatase family; Region: Isochorismatase; pfam00857 994484006631 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 994484006632 catalytic triad [active] 994484006633 conserved cis-peptide bond; other site 994484006634 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484006635 Sodium:solute symporter family; Region: SSF; cl00456 994484006636 PAS fold; Region: PAS; pfam00989 994484006637 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 994484006638 putative active site [active] 994484006639 heme pocket [chemical binding]; other site 994484006640 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484006641 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...; Region: AAA; cd00009 994484006642 Walker A motif; other site 994484006643 ATP binding site [chemical binding]; other site 994484006644 Walker B motif; other site 994484006645 arginine finger; other site 994484006646 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484006647 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 994484006648 active site 994484006649 NAD binding site [chemical binding]; other site 994484006650 metal binding site [ion binding]; metal-binding site 994484006651 Putative cyclase; Region: Cyclase; cl00814 994484006652 Putative cyclase; Region: Cyclase; cl00814 994484006653 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484006654 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 994484006655 NAD(P) binding site [chemical binding]; other site 994484006656 catalytic residues [active] 994484006657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006659 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 994484006660 putative dimerization interface [polypeptide binding]; other site 994484006661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484006662 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 994484006663 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 994484006664 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484006665 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484006666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006667 dimer interface [polypeptide binding]; other site 994484006668 conserved gate region; other site 994484006669 putative PBP binding loops; other site 994484006670 ABC-ATPase subunit interface; other site 994484006671 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484006672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006673 dimer interface [polypeptide binding]; other site 994484006674 conserved gate region; other site 994484006675 putative PBP binding loops; other site 994484006676 ABC-ATPase subunit interface; other site 994484006677 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484006678 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 994484006679 Walker A/P-loop; other site 994484006680 ATP binding site [chemical binding]; other site 994484006681 Q-loop/lid; other site 994484006682 ABC transporter signature motif; other site 994484006683 Walker B; other site 994484006684 D-loop; other site 994484006685 H-loop/switch region; other site 994484006686 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006687 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484006688 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 994484006689 Walker A/P-loop; other site 994484006690 ATP binding site [chemical binding]; other site 994484006691 Q-loop/lid; other site 994484006692 ABC transporter signature motif; other site 994484006693 Walker B; other site 994484006694 D-loop; other site 994484006695 H-loop/switch region; other site 994484006696 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006697 Beta-lactamase; Region: Beta-lactamase; cl01009 994484006698 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 994484006699 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 994484006700 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484006701 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484006702 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484006703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006705 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 994484006706 putative substrate binding pocket [chemical binding]; other site 994484006707 putative dimerization interface [polypeptide binding]; other site 994484006708 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 994484006709 putative active site [active] 994484006710 putative metal binding site [ion binding]; other site 994484006711 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)...; Region: Rieske; cd03467 994484006712 iron-sulfur cluster [ion binding]; other site 994484006713 [2Fe-2S] cluster binding site [ion binding]; other site 994484006714 hypothetical protein; Provisional; Region: PRK06847 994484006715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006716 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484006717 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484006718 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484006719 Ycf48-like protein; Provisional; Region: PRK13684 994484006720 Ycf48-like protein; Provisional; Region: PRK13684 994484006721 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 994484006722 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 994484006723 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)...; Region: Rieske; cl00938 994484006724 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484006725 iron-sulfur cluster [ion binding]; other site 994484006726 [2Fe-2S] cluster binding site [ion binding]; other site 994484006727 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 994484006728 alpha subunit interface [polypeptide binding]; other site 994484006729 active site 994484006730 substrate binding site [chemical binding]; other site 994484006731 Fe binding site [ion binding]; other site 994484006732 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484006733 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)...; Region: Rieske; cl00938 994484006734 iron-sulfur cluster [ion binding]; other site 994484006735 [2Fe-2S] cluster binding site [ion binding]; other site 994484006736 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 994484006737 alpha subunit interface [polypeptide binding]; other site 994484006738 active site 994484006739 substrate binding site [chemical binding]; other site 994484006740 Fe binding site [ion binding]; other site 994484006741 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484006742 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-...; Region: PDR_like; cd06185 994484006743 FMN-binding pocket [chemical binding]; other site 994484006744 flavin binding motif; other site 994484006745 phosphate binding motif [ion binding]; other site 994484006746 beta-alpha-beta structure motif; other site 994484006747 NAD binding pocket [chemical binding]; other site 994484006748 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 994484006749 catalytic loop [active] 994484006750 iron binding site [ion binding]; other site 994484006751 Cupin domain; Region: Cupin_2; cl09118 994484006752 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484006753 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484006754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006755 NAD(P) binding site [chemical binding]; other site 994484006756 active site 994484006757 Putative cyclase; Region: Cyclase; cl00814 994484006758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006760 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 994484006761 putative dimerization interface [polypeptide binding]; other site 994484006762 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 994484006763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006764 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484006765 dimer interface [polypeptide binding]; other site 994484006766 catalytic residue [active] 994484006767 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484006768 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484006769 tetramerization interface [polypeptide binding]; other site 994484006770 NAD(P) binding site [chemical binding]; other site 994484006771 catalytic residues [active] 994484006772 hypothetical protein; Provisional; Region: PRK06847 994484006773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006774 EthD protein; Region: EthD; cl06234 994484006775 M28, and M42; Region: Zinc_peptidase_like; cl14876 994484006776 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 994484006777 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484006778 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...; Region: PBPb; cd00134 994484006779 substrate binding pocket [chemical binding]; other site 994484006780 membrane-bound complex binding site; other site 994484006781 hinge residues; other site 994484006782 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 994484006783 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 994484006784 metal binding site [ion binding]; metal-binding site 994484006785 putative dimer interface [polypeptide binding]; other site 994484006786 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484006787 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484006788 NAD(P) binding site [chemical binding]; other site 994484006789 catalytic residues [active] 994484006790 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 994484006791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006792 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 994484006793 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 L-...; Region: LbH_SAT; cd03354 994484006794 trimer interface [polypeptide binding]; other site 994484006795 active site 994484006796 substrate binding site [chemical binding]; other site 994484006797 CoA binding site [chemical binding]; other site 994484006798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006800 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 994484006801 dimerization interface [polypeptide binding]; other site 994484006802 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484006803 benzoylformate decarboxylase; Reviewed; Region: PRK07092 994484006804 PYR/PP interface [polypeptide binding]; other site 994484006805 dimer interface [polypeptide binding]; other site 994484006806 TPP binding site [chemical binding]; other site 994484006807 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484006808 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 benzoylformate to benzaldehyde and carbon dioxide. This...; Region: TPP_BFDC; cd02002 994484006809 TPP-binding site [chemical binding]; other site 994484006810 dimer interface [polypeptide binding]; other site 994484006811 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484006812 Cupin domain; Region: Cupin_2; cl09118 994484006813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006814 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484006815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006816 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 994484006817 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; cl11420 994484006818 hypothetical protein; Provisional; Region: PRK07877 994484006819 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 994484006820 dimer interface [polypeptide binding]; other site 994484006821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006823 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 994484006824 dimerization interface [polypeptide binding]; other site 994484006825 LysE type translocator; Region: LysE; cl00565 994484006826 Cupin domain; Region: Cupin_2; cl09118 994484006827 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484006828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006829 Fusaric acid resistance protein family; Region: FUSC; pfam04632 994484006830 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 994484006831 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 994484006832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006833 NAD(P) binding site [chemical binding]; other site 994484006834 active site 994484006835 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 994484006836 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 994484006837 PAS fold; Region: PAS_3; pfam08447 994484006838 putative active site [active] 994484006839 heme pocket [chemical binding]; other site 994484006840 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484006841 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484006842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484006843 DNA-binding site [nucleotide binding]; DNA binding site 994484006844 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484006845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484006846 DNA-binding site [nucleotide binding]; DNA binding site 994484006847 hypothetical protein; Provisional; Region: PRK06102 994484006848 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; cl11426 994484006849 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 994484006850 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484006851 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 994484006852 benzoate transport; Region: 2A0115; TIGR00895 994484006853 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 994484006854 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484006855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006856 NAD(P) binding site [chemical binding]; other site 994484006857 active site 994484006858 classical (c) SDRs; Region: SDR_c; cd05233 994484006859 NAD(P) binding site [chemical binding]; other site 994484006860 active site 994484006861 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 994484006862 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484006863 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 994484006864 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484006865 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484006866 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484006867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006868 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 994484006869 dimerization interface [polypeptide binding]; other site 994484006870 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484006871 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 994484006872 putative ligand binding site [chemical binding]; other site 994484006873 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 994484006874 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484006875 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 trans-...; Region: HisKA; cd00082 994484006876 dimer interface [polypeptide binding]; other site 994484006877 phosphorylation site [posttranslational modification] 994484006878 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 994484006879 ATP binding site [chemical binding]; other site 994484006880 Mg2+ binding site [ion binding]; other site 994484006881 G-X-G motif; other site 994484006882 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 994484006883 active site 994484006884 phosphorylation site [posttranslational modification] 994484006885 intermolecular recognition site; other site 994484006886 dimerization interface [polypeptide binding]; other site 994484006887 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 994484006888 ATP binding site [chemical binding]; other site 994484006889 Mg2+ binding site [ion binding]; other site 994484006890 G-X-G motif; other site 994484006891 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 994484006892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006893 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 994484006894 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 994484006895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484006896 catalytic residue [active] 994484006897 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 994484006898 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 994484006899 dimer interface [polypeptide binding]; other site 994484006900 TPP-binding site [chemical binding]; other site 994484006901 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 994484006902 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 994484006903 metal binding site [ion binding]; metal-binding site 994484006904 dimer interface [polypeptide binding]; other site 994484006905 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 994484006906 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 994484006907 metal binding site [ion binding]; metal-binding site 994484006908 putative dimer interface [polypeptide binding]; other site 994484006909 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484006910 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 994484006911 Walker A/P-loop; other site 994484006912 ATP binding site [chemical binding]; other site 994484006913 Q-loop/lid; other site 994484006914 ABC transporter signature motif; other site 994484006915 Walker B; other site 994484006916 D-loop; other site 994484006917 H-loop/switch region; other site 994484006918 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006919 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484006920 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 994484006921 Walker A/P-loop; other site 994484006922 ATP binding site [chemical binding]; other site 994484006923 Q-loop/lid; other site 994484006924 ABC transporter signature motif; other site 994484006925 Walker B; other site 994484006926 D-loop; other site 994484006927 H-loop/switch region; other site 994484006928 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006929 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484006930 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484006931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006932 dimer interface [polypeptide binding]; other site 994484006933 conserved gate region; other site 994484006934 putative PBP binding loops; other site 994484006935 ABC-ATPase subunit interface; other site 994484006936 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484006937 dimer interface [polypeptide binding]; other site 994484006938 conserved gate region; other site 994484006939 putative PBP binding loops; other site 994484006940 ABC-ATPase subunit interface; other site 994484006941 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_10; cd08515 994484006942 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484006943 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006945 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 994484006946 dimerization interface [polypeptide binding]; other site 994484006947 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 994484006948 putative transporter; Provisional; Region: PRK10054 994484006949 putative substrate translocation pore; other site 994484006950 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 994484006951 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484006952 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484006953 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 994484006954 dimerization interface [polypeptide binding]; other site 994484006955 substrate binding pocket [chemical binding]; other site 994484006956 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 994484006957 EamA-like transporter family; Region: EamA; cl01037 994484006958 short chain dehydrogenase; Provisional; Region: PRK06123 994484006959 classical (c) SDRs; Region: SDR_c; cd05233 994484006960 NAD(P) binding site [chemical binding]; other site 994484006961 active site 994484006962 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 994484006963 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 994484006964 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484006965 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 994484006966 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 994484006967 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484006968 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484006969 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 994484006970 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 994484006971 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 994484006972 homodimer interface [polypeptide binding]; other site 994484006973 NADP binding site [chemical binding]; other site 994484006974 substrate binding site [chemical binding]; other site 994484006975 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 994484006976 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484006977 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484006978 putative active site [active] 994484006979 putative substrate binding site [chemical binding]; other site 994484006980 putative cosubstrate binding site; other site 994484006981 catalytic site [active] 994484006982 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 994484006983 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 994484006984 non-specific DNA binding site [nucleotide binding]; other site 994484006985 salt bridge; other site 994484006986 sequence-specific DNA binding site [nucleotide binding]; other site 994484006987 Cupin domain; Region: Cupin_2; cl09118 994484006988 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 994484006989 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484006990 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 994484006991 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 994484006992 putative active site [active] 994484006993 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 994484006994 domain_subunit interface; other site 994484006995 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...; Region: GltS_FMN; cd02808 994484006996 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 994484006997 active site 994484006998 FMN binding site [chemical binding]; other site 994484006999 substrate binding site [chemical binding]; other site 994484007000 3Fe-4S cluster binding site [ion binding]; other site 994484007001 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 994484007002 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 994484007003 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 994484007004 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 994484007005 homodimer interface [polypeptide binding]; other site 994484007006 NADP binding site [chemical binding]; other site 994484007007 substrate binding site [chemical binding]; other site 994484007008 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484007009 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484007010 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484007011 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 994484007012 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484007013 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 994484007014 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 994484007015 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484007016 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484007017 putative active site [active] 994484007018 putative substrate binding site [chemical binding]; other site 994484007019 putative cosubstrate binding site; other site 994484007020 catalytic site [active] 994484007021 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 994484007022 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484007023 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 994484007024 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484007025 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-...; Region: PDR_like; cd06185 994484007026 FMN-binding pocket [chemical binding]; other site 994484007027 flavin binding motif; other site 994484007028 phosphate binding motif [ion binding]; other site 994484007029 beta-alpha-beta structure motif; other site 994484007030 NAD binding pocket [chemical binding]; other site 994484007031 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 994484007032 catalytic loop [active] 994484007033 iron binding site [ion binding]; other site 994484007034 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 994484007035 Histidine kinase; Region: HisKA_3; pfam07730 994484007036 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 994484007037 ATP binding site [chemical binding]; other site 994484007038 Mg2+ binding site [ion binding]; other site 994484007039 G-X-G motif; other site 994484007040 transcriptional regulator NarL; Provisional; Region: PRK10651 994484007041 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 994484007042 active site 994484007043 phosphorylation site [posttranslational modification] 994484007044 intermolecular recognition site; other site 994484007045 dimerization interface [polypeptide binding]; other site 994484007046 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...; Region: LuxR_C_like; cd06170 994484007047 DNA binding residues [nucleotide binding] 994484007048 dimerization interface [polypeptide binding]; other site 994484007049 PAS fold; Region: PAS_4; pfam08448 994484007050 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 994484007051 PAS fold; Region: PAS_3; pfam08447 994484007052 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484007053 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 994484007054 putative ligand binding site [chemical binding]; other site 994484007055 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 994484007056 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484007057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007058 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484007059 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 994484007060 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...; Region: AAA; cd00009 994484007061 Walker A motif; other site 994484007062 ATP binding site [chemical binding]; other site 994484007063 Walker B motif; other site 994484007064 arginine finger; other site 994484007065 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484007066 K+ potassium transporter; Region: K_trans; cl01227 994484007067 potassium uptake protein; Region: kup; TIGR00794 994484007068 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 994484007069 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 994484007070 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 994484007071 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484007072 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 994484007073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484007074 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 (mostly non-lantibiotic). The...; Region: Peptidase_C39_like; cl00296 994484007075 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 994484007076 putative homotetramer interface [polypeptide binding]; other site 994484007077 putative homodimer interface [polypeptide binding]; other site 994484007078 putative metal binding site [ion binding]; other site 994484007079 putative homodimer-homodimer interface [polypeptide binding]; other site 994484007080 putative allosteric switch controlling residues; other site 994484007081 High-affinity nickel-transport protein; Region: NicO; cl00964 994484007082 High-affinity nickel-transport protein; Region: NicO; cl00964 994484007083 potential frameshift: common BLAST hit: gi|170724324|ref|YP_001752012.1| TraX family protein 994484007084 TraX protein; Region: TraX; cl05434 994484007085 TraX protein; Region: TraX; cl05434 994484007086 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 994484007087 putative substrate translocation pore; other site 994484007088 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 994484007089 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 994484007090 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484007091 Zn2+ binding site [ion binding]; other site 994484007092 Mg2+ binding site [ion binding]; other site 994484007093 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007094 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 994484007095 active site 994484007096 phosphorylation site [posttranslational modification] 994484007097 intermolecular recognition site; other site 994484007098 dimerization interface [polypeptide binding]; other site 994484007099 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 994484007100 anti sigma factor interaction site; other site 994484007101 regulatory phosphorylation site [posttranslational modification]; other site 994484007102 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484007103 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 994484007104 putative binding surface; other site 994484007105 active site 994484007106 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484007107 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 994484007108 ATP binding site [chemical binding]; other site 994484007109 Mg2+ binding site [ion binding]; other site 994484007110 G-X-G motif; other site 994484007111 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 994484007112 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484007113 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484007114 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484007115 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484007116 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 994484007117 putative CheA interaction surface; other site 994484007118 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484007119 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 994484007120 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; cl12011 994484007121 CheD chemotactic sensory transduction; Region: CheD; cl00810 994484007122 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484007123 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 994484007124 active site 994484007125 phosphorylation site [posttranslational modification] 994484007126 intermolecular recognition site; other site 994484007127 dimerization interface [polypeptide binding]; other site 994484007128 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...; Region: LuxR_C_like; cd06170 994484007129 DNA binding residues [nucleotide binding] 994484007130 dimerization interface [polypeptide binding]; other site 994484007131 PAS domain S-box; Region: sensory_box; TIGR00229 994484007132 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 994484007133 putative active site [active] 994484007134 heme pocket [chemical binding]; other site 994484007135 PAS fold; Region: PAS_4; pfam08448 994484007136 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 994484007137 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484007138 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 994484007139 putative active site [active] 994484007140 heme pocket [chemical binding]; other site 994484007141 Histidine kinase; Region: HisKA_3; pfam07730 994484007142 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 994484007143 Cache domain; Region: Cache_1; pfam02743 994484007144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 994484007145 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 trans-...; Region: HisKA; cd00082 994484007146 dimer interface [polypeptide binding]; other site 994484007147 phosphorylation site [posttranslational modification] 994484007148 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 994484007149 ATP binding site [chemical binding]; other site 994484007150 Mg2+ binding site [ion binding]; other site 994484007151 G-X-G motif; other site 994484007152 two component system sensor kinase SsrA; Provisional; Region: PRK15347 994484007153 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 994484007154 intermolecular recognition site; other site 994484007155 active site 994484007156 dimerization interface [polypeptide binding]; other site 994484007157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484007158 Zn2+ binding site [ion binding]; other site 994484007159 Mg2+ binding site [ion binding]; other site 994484007160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484007161 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 994484007162 putative substrate translocation pore; other site 994484007163 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 994484007164 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...; Region: DnaJ; cd06257 994484007165 HSP70 interaction site [polypeptide binding]; other site 994484007166 YCII-related domain; Region: YCII; cl00999 994484007167 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 994484007168 dimer interface [polypeptide binding]; other site 994484007169 OPT oligopeptide transporter protein; Region: OPT; cl14607 994484007170 OPT oligopeptide transporter protein; Region: OPT; cl14607 994484007171 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484007172 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 994484007173 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484007174 GAF domain; Region: GAF; cl00853 994484007175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484007176 metal binding site [ion binding]; metal-binding site 994484007177 active site 994484007178 I-site; other site 994484007179 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 994484007180 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484007181 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484007182 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484007183 active site 994484007184 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484007185 acyl-CoA synthetase; Validated; Region: PRK08162 994484007186 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007187 PAS domain S-box; Region: sensory_box; TIGR00229 994484007188 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 994484007189 putative active site [active] 994484007190 heme pocket [chemical binding]; other site 994484007191 sensory histidine kinase AtoS; Provisional; Region: PRK11360 994484007192 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 994484007193 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 trans-...; Region: HisKA; cd00082 994484007194 dimer interface [polypeptide binding]; other site 994484007195 phosphorylation site [posttranslational modification] 994484007196 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 994484007197 ATP binding site [chemical binding]; other site 994484007198 G-X-G motif; other site 994484007199 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 994484007200 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 994484007201 active site 994484007202 phosphorylation site [posttranslational modification] 994484007203 intermolecular recognition site; other site 994484007204 dimerization interface [polypeptide binding]; other site 994484007205 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...; Region: LuxR_C_like; cd06170 994484007206 DNA binding residues [nucleotide binding] 994484007207 dimerization interface [polypeptide binding]; other site 994484007208 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484007209 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484007210 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 994484007211 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484007212 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484007213 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484007214 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484007215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007216 Autoinducer binding domain; Region: Autoind_bind; pfam03472 994484007217 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...; Region: LuxR_C_like; cd06170 994484007218 DNA binding residues [nucleotide binding] 994484007219 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 994484007220 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 994484007221 glutamine binding [chemical binding]; other site 994484007222 catalytic triad [active] 994484007223 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 994484007224 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 994484007225 chorismate binding enzyme; Region: Chorismate_bind; cl10555 994484007226 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007227 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484007228 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 994484007229 EamA-like transporter family; Region: EamA; cl01037 994484007230 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484007231 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 994484007232 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 994484007233 dimer interface [polypeptide binding]; other site 994484007234 active site 994484007235 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484007236 substrate binding site [chemical binding]; other site 994484007237 catalytic residue [active] 994484007238 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 994484007239 putative substrate translocation pore; other site 994484007240 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 994484007241 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 994484007242 M28, and M42; Region: Zinc_peptidase_like; cl14876 994484007243 metal binding site [ion binding]; metal-binding site 994484007244 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 994484007245 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 994484007246 active site 994484007247 non-prolyl cis peptide bond; other site 994484007248 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 994484007249 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 994484007250 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 994484007251 Walker A/P-loop; other site 994484007252 ATP binding site [chemical binding]; other site 994484007253 Q-loop/lid; other site 994484007254 ABC transporter signature motif; other site 994484007255 Walker B; other site 994484007256 D-loop; other site 994484007257 H-loop/switch region; other site 994484007258 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 994484007259 TM-ABC transporter signature motif; other site 994484007260 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 994484007261 TM-ABC transporter signature motif; other site 994484007262 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 994484007263 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484007264 putative ligand binding site [chemical binding]; other site 994484007265 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 994484007266 putative ligand binding site [chemical binding]; other site 994484007267 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484007268 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 994484007269 Walker A/P-loop; other site 994484007270 ATP binding site [chemical binding]; other site 994484007271 Q-loop/lid; other site 994484007272 ABC transporter signature motif; other site 994484007273 Walker B; other site 994484007274 D-loop; other site 994484007275 H-loop/switch region; other site 994484007276 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484007277 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484007278 active site 994484007279 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 994484007280 active site 994484007281 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 994484007282 dimer interface [polypeptide binding]; other site 994484007283 non-prolyl cis peptide bond; other site 994484007284 insertion regions; other site 994484007285 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 994484007286 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...; Region: AAA; cd00009 994484007287 Walker A motif; other site 994484007288 ATP binding site [chemical binding]; other site 994484007289 Walker B motif; other site 994484007290 arginine finger; other site 994484007291 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484007292 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484007293 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484007294 Flavin binding site [chemical binding]; other site 994484007295 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484007296 LysE type translocator; Region: LysE; cl00565 994484007297 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 994484007298 LysE type translocator; Region: LysE; cl00565 994484007299 NmrA-like family; Region: NmrA; pfam05368 994484007300 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 994484007301 NADP binding site [chemical binding]; other site 994484007302 active site 994484007303 regulatory binding site [polypeptide binding]; other site 994484007304 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484007305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007306 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 994484007307 putative effector binding pocket; other site 994484007308 dimerization interface [polypeptide binding]; other site 994484007309 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007310 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 994484007311 putative substrate translocation pore; other site 994484007312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007314 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 994484007315 putative dimerization interface [polypeptide binding]; other site 994484007316 PrpF protein; Region: PrpF; pfam04303 994484007317 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484007318 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; cl09110 994484007319 Citrate transporter; Region: CitMHS; pfam03600 994484007320 outer membrane porin, OprD family; Region: OprD; pfam03573 994484007321 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 994484007322 Cache domain; Region: Cache_1; pfam02743 994484007323 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484007324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484007325 DNA-binding site [nucleotide binding]; DNA binding site 994484007326 FCD domain; Region: FCD; cl11656 994484007327 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 994484007328 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 994484007329 NAD(P) binding site [chemical binding]; other site 994484007330 catalytic residues [active] 994484007331 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484007332 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484007333 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 994484007334 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484007335 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 trans-...; Region: HisKA; cd00082 994484007336 dimer interface [polypeptide binding]; other site 994484007337 phosphorylation site [posttranslational modification] 994484007338 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 994484007339 ATP binding site [chemical binding]; other site 994484007340 Mg2+ binding site [ion binding]; other site 994484007341 G-X-G motif; other site 994484007342 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484007343 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 994484007344 active site 994484007345 phosphorylation site [posttranslational modification] 994484007346 intermolecular recognition site; other site 994484007347 dimerization interface [polypeptide binding]; other site 994484007348 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...; Region: trans_reg_C; cd00383 994484007349 DNA binding site [nucleotide binding] 994484007350 MltA-interacting protein MipA; Region: MipA; cl01504 994484007351 Nitrate and nitrite sensing; Region: NIT; pfam08376 994484007352 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484007353 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484007354 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484007355 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484007356 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 994484007357 D-galactonate transporter; Region: 2A0114; TIGR00893 994484007358 putative substrate translocation pore; other site 994484007359 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical...; Region: CHS_like; cd00831 994484007360 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 994484007361 malonyl-CoA binding site [chemical binding]; other site 994484007362 dimer interface [polypeptide binding]; other site 994484007363 active site 994484007364 product binding site; other site 994484007365 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 994484007366 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 994484007367 DUF35 OB-fold domain; Region: DUF35; pfam01796 994484007368 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 994484007369 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 3-ketacyl-; Region: SCP-x_thiolase; cd00829 994484007370 active site 994484007371 hypothetical protein; Provisional; Region: PRK04262 994484007372 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by...; Region: init_cond_enzymes; cd00827 994484007373 dimer interface [polypeptide binding]; other site 994484007374 active site 994484007375 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484007376 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484007377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484007378 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484007379 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 994484007380 DoxX; Region: DoxX; cl00976 994484007381 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 994484007382 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 994484007383 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 994484007384 Dehydratase family; Region: ILVD_EDD; cl00340 994484007385 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 994484007386 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484007387 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 994484007388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007389 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 994484007390 putative dimerization interface [polypeptide binding]; other site 994484007391 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484007392 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 994484007393 putative substrate translocation pore; other site 994484007394 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 994484007395 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 994484007396 NAD binding site [chemical binding]; other site 994484007397 homotetramer interface [polypeptide binding]; other site 994484007398 homodimer interface [polypeptide binding]; other site 994484007399 active site 994484007400 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 994484007401 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484007402 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484007403 Protein export membrane protein; Region: SecD_SecF; cl14618 994484007404 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 994484007405 Cache domain; Region: Cache_1; pfam02743 994484007406 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484007407 dimerization interface [polypeptide binding]; other site 994484007408 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484007409 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484007410 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484007411 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484007412 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 994484007413 NAD(P) binding site [chemical binding]; other site 994484007414 catalytic residues [active] 994484007415 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 994484007416 hypothetical protein; Provisional; Region: PRK07481 994484007417 inhibitor-cofactor binding pocket; inhibition site 994484007418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484007419 catalytic residue [active] 994484007420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007421 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484007422 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484007423 hypothetical protein; Validated; Region: PRK07586 994484007424 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484007425 PYR/PP interface [polypeptide binding]; other site 994484007426 dimer interface [polypeptide binding]; other site 994484007427 TPP binding site [chemical binding]; other site 994484007428 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 benzoylformate to benzaldehyde and carbon dioxide. This...; Region: TPP_BFDC; cd02002 994484007429 TPP-binding site [chemical binding]; other site 994484007430 dimer interface [polypeptide binding]; other site 994484007431 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484007432 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484007433 NAD(P) binding site [chemical binding]; other site 994484007434 catalytic residues [active] 994484007435 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484007436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007437 NAD(P) binding site [chemical binding]; other site 994484007438 active site 994484007439 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484007440 Ycf48-like protein; Provisional; Region: PRK13684 994484007441 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 994484007442 active site 994484007443 metal binding site [ion binding]; metal-binding site 994484007444 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 994484007445 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 994484007446 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484007447 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 994484007448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007451 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484007452 transcriptional regulator EutR; Provisional; Region: PRK10130 994484007453 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484007454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484007455 DNA-binding site [nucleotide binding]; DNA binding site 994484007456 FCD domain; Region: FCD; cl11656 994484007457 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484007458 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...; Region: PBPb; cd00134 994484007459 substrate binding pocket [chemical binding]; other site 994484007460 membrane-bound complex binding site; other site 994484007461 hinge residues; other site 994484007462 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484007463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484007464 dimer interface [polypeptide binding]; other site 994484007465 conserved gate region; other site 994484007466 putative PBP binding loops; other site 994484007467 ABC-ATPase subunit interface; other site 994484007468 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484007469 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484007470 Walker A/P-loop; other site 994484007471 ATP binding site [chemical binding]; other site 994484007472 Q-loop/lid; other site 994484007473 ABC transporter signature motif; other site 994484007474 Walker B; other site 994484007475 D-loop; other site 994484007476 H-loop/switch region; other site 994484007477 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484007478 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 994484007479 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 994484007480 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 994484007481 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484007482 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 994484007483 putative NAD(P) binding site [chemical binding]; other site 994484007484 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 994484007485 classical (c) SDRs; Region: SDR_c; cd05233 994484007486 NAD(P) binding site [chemical binding]; other site 994484007487 active site 994484007488 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484007489 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 994484007490 FMN binding site [chemical binding]; other site 994484007491 active site 994484007492 substrate binding site [chemical binding]; other site 994484007493 catalytic residue [active] 994484007494 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484007495 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484007496 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484007497 DNA binding site [nucleotide binding] 994484007498 domain linker motif; other site 994484007499 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 994484007500 putative dimerization interface [polypeptide binding]; other site 994484007501 putative ligand binding site [chemical binding]; other site 994484007502 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 994484007503 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 994484007504 substrate binding [chemical binding]; other site 994484007505 active site 994484007506 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 994484007507 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484007508 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 994484007509 Walker A/P-loop; other site 994484007510 ATP binding site [chemical binding]; other site 994484007511 Q-loop/lid; other site 994484007512 ABC transporter signature motif; other site 994484007513 Walker B; other site 994484007514 D-loop; other site 994484007515 H-loop/switch region; other site 994484007516 TOBE domain; Region: TOBE_2; cl01440 994484007517 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484007518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484007519 dimer interface [polypeptide binding]; other site 994484007520 putative PBP binding loops; other site 994484007521 ABC-ATPase subunit interface; other site 994484007522 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484007523 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484007524 dimer interface [polypeptide binding]; other site 994484007525 conserved gate region; other site 994484007526 putative PBP binding loops; other site 994484007527 ABC-ATPase subunit interface; other site 994484007528 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484007529 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 994484007530 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel beta-...; Region: Maltoporin-like; cd01346 994484007531 trimer interface; other site 994484007532 sugar binding site [chemical binding]; other site 994484007533 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 994484007534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007535 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484007536 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 994484007537 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 994484007538 substrate binding site [chemical binding]; other site 994484007539 ATP binding site [chemical binding]; other site 994484007540 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 994484007541 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 994484007542 putative active site pocket [active] 994484007543 putative metal binding site [ion binding]; other site 994484007544 putative oxidoreductase; Provisional; Region: PRK10083 994484007545 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 994484007546 putative NAD(P) binding site [chemical binding]; other site 994484007547 catalytic Zn binding site [ion binding]; other site 994484007548 structural Zn binding site [ion binding]; other site 994484007549 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 994484007550 D-galactonate transporter; Region: 2A0114; TIGR00893 994484007551 putative substrate translocation pore; other site 994484007552 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 994484007553 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 994484007554 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 994484007555 mannonate dehydratase; Region: uxuA; TIGR00695 994484007556 mannonate dehydratase; Provisional; Region: PRK03906 994484007557 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484007558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484007559 DNA-binding site [nucleotide binding]; DNA binding site 994484007560 FCD domain; Region: FCD; cl11656 994484007561 galactarate dehydratase; Region: galactar-dH20; TIGR03248 994484007562 SAF domain; Region: SAF; cl00555 994484007563 SAF domain; Region: SAF; cl00555 994484007564 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 994484007565 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 994484007566 putative NAD(P) binding site [chemical binding]; other site 994484007567 catalytic Zn binding site [ion binding]; other site 994484007568 structural Zn binding site [ion binding]; other site 994484007569 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 994484007570 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 994484007571 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 994484007572 PAS fold; Region: PAS_4; pfam08448 994484007573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484007574 metal binding site [ion binding]; metal-binding site 994484007575 active site 994484007576 I-site; other site 994484007577 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 994484007578 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007579 active site 994484007580 phosphorylation site [posttranslational modification] 994484007581 intermolecular recognition site; other site 994484007582 dimerization interface [polypeptide binding]; other site 994484007583 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 994484007584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484007585 metal binding site [ion binding]; metal-binding site 994484007586 active site 994484007587 I-site; other site 994484007588 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 994484007589 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 994484007590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484007591 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 994484007592 ATP binding site [chemical binding]; other site 994484007593 Mg2+ binding site [ion binding]; other site 994484007594 G-X-G motif; other site 994484007595 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 994484007596 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484007597 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 994484007598 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 994484007599 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 994484007600 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 994484007601 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 994484007602 Walker A/P-loop; other site 994484007603 ATP binding site [chemical binding]; other site 994484007604 Q-loop/lid; other site 994484007605 ABC transporter signature motif; other site 994484007606 Walker B; other site 994484007607 D-loop; other site 994484007608 H-loop/switch region; other site 994484007609 Condensation domain; Region: Condensation; cl09290 994484007610 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007611 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007612 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007613 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 994484007614 Condensation domain; Region: Condensation; cl09290 994484007615 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007616 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007617 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007618 Condensation domain; Region: Condensation; cl09290 994484007619 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484007620 Condensation domain; Region: Condensation; cl09290 994484007621 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007622 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007623 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007624 Condensation domain; Region: Condensation; cl09290 994484007625 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484007626 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484007627 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 994484007628 Condensation domain; Region: Condensation; cl09290 994484007629 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007630 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007631 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007632 Condensation domain; Region: Condensation; cl09290 994484007633 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 994484007634 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007635 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007636 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007637 Condensation domain; Region: Condensation; cl09290 994484007638 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007639 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007640 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007641 Condensation domain; Region: Condensation; cl09290 994484007642 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007643 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007644 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007645 Condensation domain; Region: Condensation; cl09290 994484007646 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484007647 Condensation domain; Region: Condensation; cl09290 994484007648 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484007649 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007650 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007651 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484007652 peptide synthase; Validated; Region: PRK05691 994484007653 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007654 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007655 Condensation domain; Region: Condensation; cl09290 994484007656 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484007657 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484007658 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 994484007659 N-terminal plug; other site 994484007660 ligand-binding site [chemical binding]; other site 994484007661 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 994484007662 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 994484007663 inhibitor-cofactor binding pocket; inhibition site 994484007664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484007665 catalytic residue [active] 994484007666 Uncharacterized conserved protein [Function unknown]; Region: COG3287 994484007667 FIST N domain; Region: FIST; cl10701 994484007668 FIST C domain; Region: FIST_C; pfam10442 994484007669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484007670 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 994484007671 TPR motif; other site 994484007672 binding surface 994484007673 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 994484007674 binding surface 994484007675 TPR motif; other site 994484007676 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484007677 RHS Repeat; Region: RHS_repeat; cl11982 994484007678 RHS Repeat; Region: RHS_repeat; cl11982 994484007679 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484007680 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484007681 RHS Repeat; Region: RHS_repeat; cl11982 994484007682 RHS Repeat; Region: RHS_repeat; cl11982 994484007683 RHS Repeat; Region: RHS_repeat; cl11982 994484007684 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484007685 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484007686 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 994484007687 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 994484007688 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 994484007689 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 994484007690 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 994484007691 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 994484007692 FHIPEP family; Region: FHIPEP; pfam00771 994484007693 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 994484007694 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484007695 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 994484007696 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484007697 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484007698 SAF domain; Region: SAF; cl00555 994484007699 Flagellar L-ring protein; Region: FlgH; cl00905 994484007700 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 994484007701 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 994484007702 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 994484007703 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 994484007704 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 994484007705 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 994484007706 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 994484007707 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 994484007708 Flagellar assembly protein FliH; Region: FliH; pfam02108 994484007709 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 994484007710 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 994484007711 Walker A motif/ATP binding site; other site 994484007712 Walker B motif; other site 994484007713 Flagellar hook capping protein; Region: FlgD; cl04347 994484007714 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 994484007715 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 994484007716 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484007717 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 994484007718 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484007719 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484007720 FliP family; Region: FliP; cl00593 994484007721 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 994484007722 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484007723 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...; Region: Sigma70_r4; cd06171 994484007724 DNA binding residues [nucleotide binding] 994484007725 hypothetical protein; Provisional; Region: PRK06184 994484007726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007727 putative S-transferase; Provisional; Region: PRK11752 994484007728 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...; Region: GST_N_Ure2p_like; cd03048 994484007729 C-terminal domain interface [polypeptide binding]; other site 994484007730 GSH binding site (G-site) [chemical binding]; other site 994484007731 dimer interface [polypeptide binding]; other site 994484007732 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 994484007733 dimer interface [polypeptide binding]; other site 994484007734 N-terminal domain interface [polypeptide binding]; other site 994484007735 active site 994484007736 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484007737 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484007738 metal binding site [ion binding]; metal-binding site 994484007739 active site 994484007740 I-site; other site 994484007741 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...; Region: PBPb; cd00134 994484007742 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484007743 substrate binding pocket [chemical binding]; other site 994484007744 membrane-bound complex binding site; other site 994484007745 hinge residues; other site 994484007746 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484007747 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...; Region: Aldo_ket_red; cd06660 994484007748 active site 994484007749 catalytic tetrad [active] 994484007750 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007751 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484007752 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 994484007753 putative effector binding pocket; other site 994484007754 putative dimerization interface [polypeptide binding]; other site 994484007755 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 994484007756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484007757 dimer interface [polypeptide binding]; other site 994484007758 conserved gate region; other site 994484007759 putative PBP binding loops; other site 994484007760 ABC-ATPase subunit interface; other site 994484007761 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484007762 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 994484007763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484007764 Walker A/P-loop; other site 994484007765 ATP binding site [chemical binding]; other site 994484007766 Q-loop/lid; other site 994484007767 ABC transporter signature motif; other site 994484007768 Walker B; other site 994484007769 D-loop; other site 994484007770 H-loop/switch region; other site 994484007771 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484007772 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 994484007773 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...; Region: PBPb; cl15306 994484007774 substrate binding pocket [chemical binding]; other site 994484007775 membrane-bound complex binding site; other site 994484007776 hinge residues; other site 994484007777 Phosphate transporter family; Region: PHO4; cl00396 994484007778 Phosphate transporter family; Region: PHO4; cl00396 994484007779 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 994484007780 exopolyphosphatase; Region: exo_poly_only; TIGR03706 994484007781 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 994484007782 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 994484007783 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 994484007784 dimer interface [polypeptide binding]; other site 994484007785 active site 994484007786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484007787 catalytic residues [active] 994484007788 substrate binding site [chemical binding]; other site 994484007789 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 994484007790 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484007791 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 994484007792 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 994484007793 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007794 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 994484007795 active site 994484007796 phosphorylation site [posttranslational modification] 994484007797 intermolecular recognition site; other site 994484007798 dimerization interface [polypeptide binding]; other site 994484007799 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...; Region: LuxR_C_like; cd06170 994484007800 DNA binding residues [nucleotide binding] 994484007801 Surface antigen; Region: Surface_Ag_2; cl01155 994484007802 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 994484007803 hydrophobic ligand binding site; other site 994484007804 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 994484007805 active site 994484007806 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 994484007807 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 994484007808 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007809 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484007810 hypothetical protein; Provisional; Region: PRK06184 994484007811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007812 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; cl11391 994484007813 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 994484007814 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 994484007815 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007816 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 994484007817 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 994484007818 putative NADP binding site [chemical binding]; other site 994484007819 putative substrate binding site [chemical binding]; other site 994484007820 active site 994484007821 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484007822 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484007823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007824 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484007825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484007826 Coenzyme A binding pocket [chemical binding]; other site 994484007827 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 994484007828 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484007829 DNA-binding site [nucleotide binding]; DNA binding site 994484007830 UTRA domain; Region: UTRA; cl01230 994484007831 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484007832 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 994484007833 Walker A/P-loop; other site 994484007834 ATP binding site [chemical binding]; other site 994484007835 Q-loop/lid; other site 994484007836 ABC transporter signature motif; other site 994484007837 Walker B; other site 994484007838 D-loop; other site 994484007839 H-loop/switch region; other site 994484007840 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 994484007841 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484007842 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484007843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484007844 dimer interface [polypeptide binding]; other site 994484007845 conserved gate region; other site 994484007846 putative PBP binding loops; other site 994484007847 ABC-ATPase subunit interface; other site 994484007848 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 994484007849 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 994484007850 classical (c) SDRs; Region: SDR_c; cd05233 994484007851 NAD(P) binding site [chemical binding]; other site 994484007852 active site 994484007853 Sulfatase; Region: Sulfatase; cl10460 994484007854 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 994484007855 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...; Region: metallo-dependent_hydrolases; cl00281 994484007856 active site 994484007857 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 994484007858 active site 994484007859 NAD binding site [chemical binding]; other site 994484007860 metal binding site [ion binding]; metal-binding site 994484007861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007862 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484007863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007864 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 994484007865 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 994484007866 tetramer interface [polypeptide binding]; other site 994484007867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484007868 catalytic residue [active] 994484007869 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484007870 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...; Region: PBPb; cd00134 994484007871 membrane-bound complex binding site; other site 994484007872 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 994484007873 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484007874 NAD(P) binding site [chemical binding]; other site 994484007875 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484007876 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 994484007877 C-terminal domain interface [polypeptide binding]; other site 994484007878 GSH binding site (G-site) [chemical binding]; other site 994484007879 dimer interface [polypeptide binding]; other site 994484007880 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 994484007881 dimer interface [polypeptide binding]; other site 994484007882 N-terminal domain interface [polypeptide binding]; other site 994484007883 substrate binding pocket (H-site) [chemical binding]; other site 994484007884 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484007885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007886 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 994484007887 dimerization interface [polypeptide binding]; other site 994484007888 substrate binding pocket [chemical binding]; other site 994484007889 PAS fold; Region: PAS_4; pfam08448 994484007890 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 994484007891 putative active site [active] 994484007892 heme pocket [chemical binding]; other site 994484007893 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 994484007894 PAS fold; Region: PAS_3; pfam08447 994484007895 putative active site [active] 994484007896 heme pocket [chemical binding]; other site 994484007897 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484007898 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484007899 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 trans-...; Region: HisKA; cd00082 994484007900 dimer interface [polypeptide binding]; other site 994484007901 phosphorylation site [posttranslational modification] 994484007902 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 994484007903 ATP binding site [chemical binding]; other site 994484007904 Mg2+ binding site [ion binding]; other site 994484007905 G-X-G motif; other site 994484007906 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007907 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 994484007908 active site 994484007909 phosphorylation site [posttranslational modification] 994484007910 intermolecular recognition site; other site 994484007911 dimerization interface [polypeptide binding]; other site 994484007912 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 994484007913 active site 994484007914 phosphorylation site [posttranslational modification] 994484007915 intermolecular recognition site; other site 994484007916 dimerization interface [polypeptide binding]; other site 994484007917 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...; Region: LuxR_C_like; cd06170 994484007918 DNA binding residues [nucleotide binding] 994484007919 dimerization interface [polypeptide binding]; other site 994484007920 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484007921 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 trans-...; Region: HisKA; cd00082 994484007922 dimer interface [polypeptide binding]; other site 994484007923 phosphorylation site [posttranslational modification] 994484007924 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 994484007925 ATP binding site [chemical binding]; other site 994484007926 Mg2+ binding site [ion binding]; other site 994484007927 G-X-G motif; other site 994484007928 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007929 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 994484007930 active site 994484007931 phosphorylation site [posttranslational modification] 994484007932 intermolecular recognition site; other site 994484007933 dimerization interface [polypeptide binding]; other site 994484007934 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484007935 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484007936 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484007937 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 994484007938 FAD binding pocket [chemical binding]; other site 994484007939 FAD binding motif [chemical binding]; other site 994484007940 phosphate binding motif [ion binding]; other site 994484007941 beta-alpha-beta structure motif; other site 994484007942 NAD binding pocket [chemical binding]; other site 994484007943 Heme binding pocket [chemical binding]; other site 994484007944 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 994484007945 catalytic loop [active] 994484007946 iron binding site [ion binding]; other site 994484007947 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484007948 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 994484007949 putative C-terminal domain interface [polypeptide binding]; other site 994484007950 putative GSH binding site (G-site) [chemical binding]; other site 994484007951 putative dimer interface [polypeptide binding]; other site 994484007952 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 994484007953 putative N-terminal domain interface [polypeptide binding]; other site 994484007954 putative dimer interface [polypeptide binding]; other site 994484007955 putative substrate binding pocket (H-site) [chemical binding]; other site 994484007956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007958 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 994484007959 putative effector binding pocket; other site 994484007960 putative dimerization interface [polypeptide binding]; other site 994484007961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007963 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 994484007964 dimerization interface [polypeptide binding]; other site 994484007965 Cupin domain; Region: Cupin_2; cl09118 994484007966 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484007967 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007968 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484007969 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 994484007970 EamA-like transporter family; Region: EamA; cl01037 994484007971 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484007973 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 994484007974 dimerization interface [polypeptide binding]; other site 994484007975 amidase; Validated; Region: PRK06565 994484007976 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; cl11426 994484007977 Thermostable hemolysin; Region: T_hemolysin; pfam12261 994484007978 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 994484007979 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484007980 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 994484007981 heme binding pocket [chemical binding]; other site 994484007982 heme ligand [chemical binding]; other site 994484007983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007984 NAD(P) binding site [chemical binding]; other site 994484007985 active site 994484007986 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 994484007987 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 994484007988 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 994484007989 active site 994484007990 phosphorylation site [posttranslational modification] 994484007991 intermolecular recognition site; other site 994484007992 dimerization interface [polypeptide binding]; other site 994484007993 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...; Region: trans_reg_C; cd00383 994484007994 DNA binding site [nucleotide binding] 994484007995 sensor protein QseC; Provisional; Region: PRK10337 994484007996 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 trans-...; Region: HisKA; cd00082 994484007997 dimer interface [polypeptide binding]; other site 994484007998 phosphorylation site [posttranslational modification] 994484007999 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 994484008000 ATP binding site [chemical binding]; other site 994484008001 Mg2+ binding site [ion binding]; other site 994484008002 G-X-G motif; other site 994484008003 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 994484008004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008005 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 994484008006 YeeE/YedE family (DUF395); Region: DUF395; cl01018 994484008007 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484008008 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 994484008009 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 994484008010 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484008011 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 994484008012 PAS fold; Region: PAS_4; pfam08448 994484008013 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...; Region: AAA; cd00009 994484008014 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484008015 Walker A motif; other site 994484008016 ATP binding site [chemical binding]; other site 994484008017 Walker B motif; other site 994484008018 arginine finger; other site 994484008019 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484008020 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 994484008021 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 994484008022 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 994484008023 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 994484008024 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 994484008025 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 994484008026 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 994484008027 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484008028 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; cl11391 994484008029 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 994484008030 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 994484008031 Ligand Binding Site [chemical binding]; other site 994484008032 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 994484008033 Ligand Binding Site [chemical binding]; other site 994484008034 Predicted membrane protein [Function unknown]; Region: COG3174 994484008035 universal stress protein UspE; Provisional; Region: PRK11175 994484008036 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 994484008037 Ligand Binding Site [chemical binding]; other site 994484008038 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 994484008039 Ligand Binding Site [chemical binding]; other site 994484008040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484008041 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 994484008042 Ligand Binding Site [chemical binding]; other site 994484008043 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 994484008044 Ligand Binding Site [chemical binding]; other site 994484008045 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484008046 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 994484008047 putative NAD(P) binding site [chemical binding]; other site 994484008048 putative substrate binding site [chemical binding]; other site 994484008049 catalytic Zn binding site [ion binding]; other site 994484008050 structural Zn binding site [ion binding]; other site 994484008051 putative phosphoketolase; Provisional; Region: PRK05261 994484008052 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 994484008053 TPP-binding site; other site 994484008054 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 994484008055 XFP C-terminal domain; Region: XFP_C; pfam09363 994484008056 universal stress protein UspE; Provisional; Region: PRK11175 994484008057 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 994484008058 Ligand Binding Site [chemical binding]; other site 994484008059 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 994484008060 Ligand Binding Site [chemical binding]; other site 994484008061 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 994484008062 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484008063 Beta-Casp domain; Region: Beta-Casp; cl12567 994484008064 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 994484008065 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 994484008066 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...; Region: ACD_sHsps-like; cd06464 994484008067 putative dimer interface [polypeptide binding]; other site 994484008068 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484008069 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484008070 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 994484008071 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 994484008072 ligand binding site [chemical binding]; other site 994484008073 flexible hinge region; other site 994484008074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008075 FtsH Extracellular; Region: FtsH_ext; pfam06480 994484008076 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 994484008077 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...; Region: AAA; cd00009 994484008078 Walker A motif; other site 994484008079 ATP binding site [chemical binding]; other site 994484008080 Walker B motif; other site 994484008081 arginine finger; other site 994484008082 Peptidase family M41; Region: Peptidase_M41; pfam01434 994484008083 Protein of unknown function (DUF3359); Region: DUF3359; pfam11839 994484008084 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 994484008085 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484008086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008087 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 994484008088 dimerization interface [polypeptide binding]; other site 994484008089 substrate binding pocket [chemical binding]; other site 994484008090 outer membrane porin, OprD family; Region: OprD; pfam03573 994484008091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008092 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484008093 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484008094 ApbE family; Region: ApbE; cl00643 994484008095 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484008096 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484008097 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 994484008098 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 994484008099 FAD binding pocket [chemical binding]; other site 994484008100 FAD binding motif [chemical binding]; other site 994484008101 catalytic residues [active] 994484008102 NAD binding pocket [chemical binding]; other site 994484008103 phosphate binding motif [ion binding]; other site 994484008104 beta-alpha-beta structure motif; other site 994484008105 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 994484008106 Uncharacterized conserved protein [Function unknown]; Region: COG5591 994484008107 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484008108 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 994484008109 active site 994484008110 phosphorylation site [posttranslational modification] 994484008111 intermolecular recognition site; other site 994484008112 dimerization interface [polypeptide binding]; other site 994484008113 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...; Region: trans_reg_C; cd00383 994484008114 DNA binding site [nucleotide binding] 994484008115 sensor protein QseC; Provisional; Region: PRK10337 994484008116 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 trans-...; Region: HisKA; cl00080 994484008117 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 994484008118 ATP binding site [chemical binding]; other site 994484008119 Mg2+ binding site [ion binding]; other site 994484008120 G-X-G motif; other site 994484008121 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 994484008122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008123 DNA-binding site [nucleotide binding]; DNA binding site 994484008124 UTRA domain; Region: UTRA; cl01230 994484008125 benzoate transport; Region: 2A0115; TIGR00895 994484008126 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 994484008127 putative substrate translocation pore; other site 994484008128 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...; Region: metallo-dependent_hydrolases; cl00281 994484008129 active site 994484008130 hypothetical protein; Provisional; Region: PRK13560 994484008131 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 994484008132 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484008133 putative active site [active] 994484008134 heme pocket [chemical binding]; other site 994484008135 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 994484008136 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484008137 putative active site [active] 994484008138 heme pocket [chemical binding]; other site 994484008139 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 994484008140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 994484008141 Histidine kinase; Region: HisKA_2; cl06527 994484008142 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484008143 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 994484008144 active site 994484008145 phosphorylation site [posttranslational modification] 994484008146 intermolecular recognition site; other site 994484008147 dimerization interface [polypeptide binding]; other site 994484008148 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life...; Region: HINT_subgroup; cd01277 994484008149 HIT family signature motif; other site 994484008150 catalytic residue [active] 994484008151 Cupin domain; Region: Cupin_2; cl09118 994484008152 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484008153 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484008154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008156 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 994484008157 putative effector binding pocket; other site 994484008158 putative dimerization interface [polypeptide binding]; other site 994484008159 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 994484008160 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 994484008161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484008162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484008163 Walker A/P-loop; other site 994484008164 ATP binding site [chemical binding]; other site 994484008165 Q-loop/lid; other site 994484008166 ABC transporter signature motif; other site 994484008167 Walker B; other site 994484008168 D-loop; other site 994484008169 H-loop/switch region; other site 994484008170 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 994484008171 dimerization interface [polypeptide binding]; other site 994484008172 putative DNA binding site [nucleotide binding]; other site 994484008173 putative Zn2+ binding site [ion binding]; other site 994484008174 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 994484008175 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484008176 putative NAD(P) binding site [chemical binding]; other site 994484008177 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484008178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008179 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008180 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 994484008181 dimerization interface [polypeptide binding]; other site 994484008182 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 994484008183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008184 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...; Region: LuxR_C_like; cd06170 994484008185 DNA binding residues [nucleotide binding] 994484008186 dimerization interface [polypeptide binding]; other site 994484008187 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484008188 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 994484008189 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484008190 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484008191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484008192 Coenzyme A binding pocket [chemical binding]; other site 994484008193 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008194 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008195 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 994484008196 putative effector binding pocket; other site 994484008197 dimerization interface [polypeptide binding]; other site 994484008198 Isochorismatase family; Region: Isochorismatase; pfam00857 994484008199 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 994484008200 catalytic triad [active] 994484008201 dimer interface [polypeptide binding]; other site 994484008202 conserved cis-peptide bond; other site 994484008203 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 5,10-...; Region: DHFR; cl00161 994484008204 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 994484008205 S-adenosylmethionine binding site [chemical binding]; other site 994484008206 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 994484008207 active site 994484008208 catalytic residues [active] 994484008209 Protein of unknown function (DUF998); Region: DUF998; cl01334 994484008210 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484008211 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; cl12011 994484008212 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 994484008213 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 994484008214 FAD binding domain; Region: FAD_binding_4; pfam01565 994484008215 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 994484008216 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484008217 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 994484008218 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 994484008219 Domain of unknown function (DUF369); Region: DUF369; cl00950 994484008220 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008222 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 994484008223 putative effector binding pocket; other site 994484008224 putative dimerization interface [polypeptide binding]; other site 994484008225 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 994484008226 putative dimer interface [polypeptide binding]; other site 994484008227 [2Fe-2S] cluster binding site [ion binding]; other site 994484008228 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 994484008229 putative dimer interface [polypeptide binding]; other site 994484008230 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 994484008231 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 994484008232 SLBB domain; Region: SLBB; pfam10531 994484008233 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 994484008234 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 994484008235 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 994484008236 catalytic loop [active] 994484008237 iron binding site [ion binding]; other site 994484008238 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 994484008239 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 alpha-; Region: HCP_like; cl14655 994484008240 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)...; Region: MopB_Formate-Dh-H; cd02753 994484008241 [4Fe-4S] binding site [ion binding]; other site 994484008242 molybdopterin cofactor binding site; other site 994484008243 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...; Region: MopB_CT_Fdh-Nap-like; cd00508 994484008244 molybdopterin cofactor binding site; other site 994484008245 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 994484008246 Inclusion body protein; Region: PixA; pfam12306 994484008247 Chorismate mutase type II; Region: CM_2; cl00693 994484008248 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 994484008249 catalytic triad [active] 994484008250 conserved cis-peptide bond; other site 994484008251 Epoxide hydrolase N terminus; Region: EHN; pfam06441 994484008252 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484008253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484008254 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484008255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008256 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 994484008257 dimerization interface [polypeptide binding]; other site 994484008258 substrate binding pocket [chemical binding]; other site 994484008259 LysE type translocator; Region: LysE; cl00565 994484008260 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 994484008261 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 994484008262 TM-ABC transporter signature motif; other site 994484008263 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 994484008264 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...; Region: ABC_Carb_Monos_I; cd03216 994484008265 Walker A/P-loop; other site 994484008266 ATP binding site [chemical binding]; other site 994484008267 Q-loop/lid; other site 994484008268 ABC transporter signature motif; other site 994484008269 Walker B; other site 994484008270 D-loop; other site 994484008271 H-loop/switch region; other site 994484008272 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 994484008273 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 994484008274 putative ligand binding site [chemical binding]; other site 994484008275 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 994484008276 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 994484008277 putative dimerization interface [polypeptide binding]; other site 994484008278 putative ligand binding site [chemical binding]; other site 994484008279 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484008280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008281 Uncharacterized conserved protein [Function unknown]; Region: COG3268 994484008282 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 994484008283 Protein of unknown function, DUF393; Region: DUF393; cl01136 994484008284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008286 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 994484008287 putative effector binding pocket; other site 994484008288 putative dimerization interface [polypeptide binding]; other site 994484008289 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484008290 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...; Region: Aldo_ket_red; cd06660 994484008291 active site 994484008292 catalytic tetrad [active] 994484008293 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 994484008294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008295 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 994484008296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008297 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484008298 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; cl12011 994484008299 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 994484008300 hypothetical protein; Provisional; Region: PRK08317 994484008301 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 994484008302 S-adenosylmethionine binding site [chemical binding]; other site 994484008303 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484008304 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484008305 Flavin binding site [chemical binding]; other site 994484008306 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484008307 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 994484008308 active site 994484008309 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 994484008310 dimer interface [polypeptide binding]; other site 994484008311 non-prolyl cis peptide bond; other site 994484008312 insertion regions; other site 994484008313 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 994484008314 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 994484008315 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 994484008316 Walker A/P-loop; other site 994484008317 ATP binding site [chemical binding]; other site 994484008318 Q-loop/lid; other site 994484008319 ABC transporter signature motif; other site 994484008320 Walker B; other site 994484008321 D-loop; other site 994484008322 H-loop/switch region; other site 994484008323 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 994484008324 TM-ABC transporter signature motif; other site 994484008325 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 994484008326 TM-ABC transporter signature motif; other site 994484008327 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 994484008328 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484008329 putative ligand binding site [chemical binding]; other site 994484008330 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484008331 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 994484008332 Walker A/P-loop; other site 994484008333 ATP binding site [chemical binding]; other site 994484008334 Q-loop/lid; other site 994484008335 ABC transporter signature motif; other site 994484008336 Walker B; other site 994484008337 D-loop; other site 994484008338 H-loop/switch region; other site 994484008339 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 994484008340 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...; Region: AAA; cd00009 994484008341 Walker A motif; other site 994484008342 ATP binding site [chemical binding]; other site 994484008343 Walker B motif; other site 994484008344 arginine finger; other site 994484008345 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484008346 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 994484008347 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...; Region: Biotinyl_lipoyl_domains; cl11404 994484008348 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 994484008349 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 994484008350 putative substrate translocation pore; other site 994484008351 NodT family; Region: outer_NodT; TIGR01845 994484008352 Outer membrane efflux protein; Region: OEP; pfam02321 994484008353 Outer membrane efflux protein; Region: OEP; pfam02321 994484008354 Response regulator receiver domain; Region: Response_reg; pfam00072 994484008355 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 994484008356 active site 994484008357 phosphorylation site [posttranslational modification] 994484008358 intermolecular recognition site; other site 994484008359 dimerization interface [polypeptide binding]; other site 994484008360 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484008361 active site 994484008362 ATP binding site [chemical binding]; other site 994484008363 substrate binding site [chemical binding]; other site 994484008364 activation loop (A-loop); other site 994484008365 Predicted ATPase [General function prediction only]; Region: COG3899 994484008366 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484008367 GAF domain; Region: GAF; cl00853 994484008368 PAS domain S-box; Region: sensory_box; TIGR00229 994484008369 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 994484008370 putative active site [active] 994484008371 heme pocket [chemical binding]; other site 994484008372 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484008373 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 994484008374 ATP binding site [chemical binding]; other site 994484008375 Mg2+ binding site [ion binding]; other site 994484008376 G-X-G motif; other site 994484008377 NC domain; Region: NC; pfam04970 994484008378 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 994484008379 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 994484008380 active site 994484008381 phosphorylation site [posttranslational modification] 994484008382 intermolecular recognition site; other site 994484008383 dimerization interface [polypeptide binding]; other site 994484008384 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...; Region: LuxR_C_like; cd06170 994484008385 DNA binding residues [nucleotide binding] 994484008386 dimerization interface [polypeptide binding]; other site 994484008387 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484008388 Beta-lactamase; Region: Beta-lactamase; cl01009 994484008389 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 994484008390 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484008391 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484008392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484008393 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484008394 Amino acid permease; Region: AA_permease; pfam00324 994484008395 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 994484008396 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 994484008397 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 994484008398 Walker A/P-loop; other site 994484008399 ATP binding site [chemical binding]; other site 994484008400 Q-loop/lid; other site 994484008401 ABC transporter signature motif; other site 994484008402 Walker B; other site 994484008403 D-loop; other site 994484008404 H-loop/switch region; other site 994484008405 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484008406 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484008407 Outer membrane efflux protein; Region: OEP; pfam02321 994484008408 Outer membrane efflux protein; Region: OEP; pfam02321 994484008409 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 994484008410 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008411 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008412 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 994484008413 Putative Ig domain; Region: He_PIG; pfam05345 994484008414 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008415 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 994484008416 Putative Ig domain; Region: He_PIG; pfam05345 994484008417 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008418 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 994484008420 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 994484008421 HemN C-terminal region; Region: HemN_C; pfam06969 994484008422 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 994484008423 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 994484008424 FeS/SAM binding site; other site 994484008425 HemN C-terminal region; Region: HemN_C; pfam06969 994484008426 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 994484008427 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 994484008428 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 994484008429 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 994484008430 FMN-binding domain; Region: FMN_bind; cl01081 994484008431 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 994484008432 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484008433 nitrous-oxide reductase; Validated; Region: PRK02888 994484008434 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484008435 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 994484008436 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 994484008437 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 994484008438 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 994484008439 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 994484008440 Walker A/P-loop; other site 994484008441 ATP binding site [chemical binding]; other site 994484008442 Q-loop/lid; other site 994484008443 ABC transporter signature motif; other site 994484008444 Walker B; other site 994484008445 D-loop; other site 994484008446 H-loop/switch region; other site 994484008447 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484008448 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 994484008449 NosL; Region: NosL; cl01769 994484008450 Uncharacterized conserved protein [Function unknown]; Region: COG3287 994484008451 FIST N domain; Region: FIST; cl10701 994484008452 FIST C domain; Region: FIST_C; pfam10442 994484008453 PAS fold; Region: PAS_7; pfam12860 994484008454 PAS fold; Region: PAS_7; pfam12860 994484008455 PAS domain S-box; Region: sensory_box; TIGR00229 994484008456 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 994484008457 putative active site [active] 994484008458 heme pocket [chemical binding]; other site 994484008459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484008460 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 trans-...; Region: HisKA; cl00080 994484008461 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 994484008462 ATP binding site [chemical binding]; other site 994484008463 Mg2+ binding site [ion binding]; other site 994484008464 G-X-G motif; other site 994484008465 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484008466 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 994484008467 active site 994484008468 phosphorylation site [posttranslational modification] 994484008469 intermolecular recognition site; other site 994484008470 dimerization interface [polypeptide binding]; other site 994484008471 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484008472 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 994484008473 active site 994484008474 phosphorylation site [posttranslational modification] 994484008475 intermolecular recognition site; other site 994484008476 dimerization interface [polypeptide binding]; other site 994484008477 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...; Region: LuxR_C_like; cd06170 994484008478 DNA binding residues [nucleotide binding] 994484008479 dimerization interface [polypeptide binding]; other site 994484008480 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 994484008481 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484008482 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 994484008483 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484008484 Walker A/P-loop; other site 994484008485 ATP binding site [chemical binding]; other site 994484008486 Q-loop/lid; other site 994484008487 ABC transporter signature motif; other site 994484008488 Walker B; other site 994484008489 D-loop; other site 994484008490 H-loop/switch region; other site 994484008491 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 994484008492 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...; Region: WD40; cl02567 994484008493 structural tetrad; other site 994484008494 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 994484008495 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 994484008496 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484008497 ligand binding site [chemical binding]; other site 994484008498 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484008499 Histidine kinase; Region: HisKA_3; pfam07730 994484008500 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 994484008501 ATP binding site [chemical binding]; other site 994484008502 Mg2+ binding site [ion binding]; other site 994484008503 G-X-G motif; other site 994484008504 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484008505 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 994484008506 active site 994484008507 phosphorylation site [posttranslational modification] 994484008508 intermolecular recognition site; other site 994484008509 dimerization interface [polypeptide binding]; other site 994484008510 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...; Region: LuxR_C_like; cd06170 994484008511 DNA binding residues [nucleotide binding] 994484008512 dimerization interface [polypeptide binding]; other site 994484008513 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484008514 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484008515 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484008516 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484008517 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 994484008518 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cd00216 994484008519 Trp docking motif; other site 994484008520 'Velcro' closure; other site 994484008521 active site 994484008522 Cytochrome c; Region: Cytochrom_C; cl11414 994484008523 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484008524 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...; Region: PBPb; cd00134 994484008525 substrate binding pocket [chemical binding]; other site 994484008526 membrane-bound complex binding site; other site 994484008527 hinge residues; other site 994484008528 Predicted secreted protein [Function unknown]; Region: COG5501; cl02313 994484008529 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 994484008530 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484008531 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 994484008532 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cd00216 994484008533 Trp docking motif; other site 994484008534 'Velcro' closure; other site 994484008535 active site 994484008536 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484008537 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008538 NAD(P) binding site [chemical binding]; other site 994484008539 catalytic residues [active] 994484008540 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 994484008541 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484008542 putative active site [active] 994484008543 metal binding site [ion binding]; metal-binding site 994484008544 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 trans-...; Region: HisKA; cd00082 994484008545 dimer interface [polypeptide binding]; other site 994484008546 phosphorylation site [posttranslational modification] 994484008547 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 994484008548 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 994484008549 ATP binding site [chemical binding]; other site 994484008550 Mg2+ binding site [ion binding]; other site 994484008551 G-X-G motif; other site 994484008552 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484008553 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 994484008554 active site 994484008555 phosphorylation site [posttranslational modification] 994484008556 intermolecular recognition site; other site 994484008557 dimerization interface [polypeptide binding]; other site 994484008558 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484008559 Predicted dehydrogenase [General function prediction only]; Region: COG0579 994484008560 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; cl09110 994484008561 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 994484008562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008564 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 994484008565 putative dimerization interface [polypeptide binding]; other site 994484008566 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 994484008567 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 994484008568 sorbitol dehydrogenase; Provisional; Region: PRK07067 994484008569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008570 NAD(P) binding site [chemical binding]; other site 994484008571 active site 994484008572 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484008573 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 994484008574 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484008575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008576 Activator of aromatic catabolism; Region: XylR_N; pfam06505 994484008577 Heme NO binding; Region: HNOB; cl15268 994484008578 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484008579 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...; Region: AAA; cd00009 994484008580 Walker A motif; other site 994484008581 ATP binding site [chemical binding]; other site 994484008582 Walker B motif; other site 994484008583 arginine finger; other site 994484008584 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008585 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 994484008586 NAD(P) binding site [chemical binding]; other site 994484008587 catalytic residues [active] 994484008588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008589 NAD(P) binding site [chemical binding]; other site 994484008590 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 994484008591 active site 994484008592 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484008593 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484008594 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484008595 Ycf48-like protein; Provisional; Region: PRK13684 994484008596 Ycf48-like protein; Provisional; Region: PRK13684 994484008597 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 994484008598 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 994484008599 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484008600 Iron permease FTR1 family; Region: FTR1; cl00475 994484008601 Fe2+ transport protein; Region: Iron_transport; cl01377 994484008602 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 994484008603 hypothetical protein; Provisional; Region: PRK06156 994484008604 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 994484008605 active site 994484008606 metal binding site [ion binding]; metal-binding site 994484008607 Peptidase family U32; Region: Peptidase_U32; cl03113 994484008608 Collagenase; Region: DUF3656; pfam12392 994484008609 Cache domain; Region: Cache_1; pfam02743 994484008610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484008611 metal binding site [ion binding]; metal-binding site 994484008612 active site 994484008613 I-site; other site 994484008614 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 994484008615 active site 994484008616 metal binding site [ion binding]; metal-binding site 994484008617 homotetramer interface [polypeptide binding]; other site 994484008618 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484008619 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 D-arabino-6-...; Region: AP2Ec; cl12060 994484008620 DNA interaction; other site 994484008621 Metal-binding active site; metal-binding site 994484008622 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484008623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008624 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484008625 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484008626 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484008627 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 994484008628 putative ligand binding site [chemical binding]; other site 994484008629 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 994484008630 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 994484008631 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 994484008632 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; cl12011 994484008633 Protein of unknown function (DUF1365); Region: DUF1365; cl01388 994484008634 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 994484008635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008636 short chain dehydrogenase; Provisional; Region: PRK06101 994484008637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008638 NAD(P) binding site [chemical binding]; other site 994484008639 active site 994484008640 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 994484008641 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484008642 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 994484008643 FMN binding site [chemical binding]; other site 994484008644 active site 994484008645 substrate binding site [chemical binding]; other site 994484008646 catalytic residue [active] 994484008647 Pirin-related protein [General function prediction only]; Region: COG1741 994484008648 Cupin domain; Region: Cupin_2; cl09118 994484008649 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484008650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008651 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 994484008652 putative effector binding pocket; other site 994484008653 dimerization interface [polypeptide binding]; other site 994484008654 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 994484008655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008656 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 994484008657 homotrimer interaction site [polypeptide binding]; other site 994484008658 putative active site [active] 994484008659 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 994484008660 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484008661 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 994484008662 metal binding site [ion binding]; metal-binding site 994484008663 putative dimer interface [polypeptide binding]; other site 994484008664 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484008665 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 994484008666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008668 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 994484008669 putative substrate binding pocket [chemical binding]; other site 994484008670 dimerization interface [polypeptide binding]; other site 994484008671 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 994484008672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008673 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 994484008674 Response regulator receiver domain; Region: Response_reg; pfam00072 994484008675 active site 994484008676 phosphorylation site [posttranslational modification] 994484008677 intermolecular recognition site; other site 994484008678 dimerization interface [polypeptide binding]; other site 994484008679 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 994484008680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008681 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 994484008682 putative substrate binding pocket [chemical binding]; other site 994484008683 putative dimerization interface [polypeptide binding]; other site 994484008684 transcriptional regulator EutR; Provisional; Region: PRK10130 994484008685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008686 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 994484008687 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 994484008688 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484008689 amidase; Provisional; Region: PRK07869 994484008690 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; cl11426 994484008691 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484008692 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008693 NAD(P) binding site [chemical binding]; other site 994484008694 catalytic residues [active] 994484008695 PAS fold; Region: PAS_3; pfam08447 994484008696 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 994484008697 putative active site [active] 994484008698 heme pocket [chemical binding]; other site 994484008699 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484008700 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484008701 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484008702 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 994484008703 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 994484008704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008705 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 994484008706 classical (c) SDRs; Region: SDR_c; cd05233 994484008707 NAD(P) binding site [chemical binding]; other site 994484008708 active site 994484008709 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 994484008710 classical (c) SDRs; Region: SDR_c; cd05233 994484008711 NAD(P) binding site [chemical binding]; other site 994484008712 active site 994484008713 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 994484008714 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...; Region: LuxR_C_like; cd06170 994484008715 DNA binding residues [nucleotide binding] 994484008716 dimerization interface [polypeptide binding]; other site 994484008717 Cupin domain; Region: Cupin_2; cl09118 994484008718 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484008719 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484008720 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 994484008721 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484008722 Flavin binding site [chemical binding]; other site 994484008723 Flavin Reductases; Region: FlaRed; cl00801 994484008724 HemN C-terminal region; Region: HemN_C; pfam06969 994484008725 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484008726 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008727 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484008728 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 994484008729 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 994484008730 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484008731 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484008732 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 994484008733 putative substrate translocation pore; other site 994484008734 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 994484008735 putative substrate binding pocket [chemical binding]; other site 994484008736 trimer interface [polypeptide binding]; other site 994484008737 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 994484008738 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 994484008739 putative active site [active] 994484008740 putative metal binding site [ion binding]; other site 994484008741 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008742 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 994484008743 NAD binding site [chemical binding]; other site 994484008744 catalytic residues [active] 994484008745 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 994484008746 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484008747 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484008748 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 994484008749 Cupin domain; Region: Cupin_2; cl09118 994484008750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008752 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484008753 hypothetical protein; Provisional; Region: PRK09936 994484008754 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 994484008755 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 994484008756 active site 994484008757 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 994484008758 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 994484008759 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 994484008760 homodimer interface [polypeptide binding]; other site 994484008761 active site 994484008762 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 994484008763 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; cl09110 994484008764 DctM-like transporters; Region: DctM; pfam06808 994484008765 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 994484008766 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484008767 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...; Region: PBPb; cd00134 994484008768 substrate binding pocket [chemical binding]; other site 994484008769 membrane-bound complex binding site; other site 994484008770 hinge residues; other site 994484008771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484008772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484008773 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 994484008774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484008775 putative substrate translocation pore; other site 994484008776 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 994484008777 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484008778 putative NAD(P) binding site [chemical binding]; other site 994484008779 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484008780 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 994484008781 active site 994484008782 phosphorylation site [posttranslational modification] 994484008783 intermolecular recognition site; other site 994484008784 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...; Region: LuxR_C_like; cd06170 994484008785 DNA binding residues [nucleotide binding] 994484008786 dimerization interface [polypeptide binding]; other site 994484008787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 994484008788 Cache domain; Region: Cache_2; cl07034 994484008789 Histidine kinase; Region: HisKA_3; pfam07730 994484008790 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 994484008791 ATP binding site [chemical binding]; other site 994484008792 Mg2+ binding site [ion binding]; other site 994484008793 G-X-G motif; other site 994484008794 Carbon starvation protein CstA; Region: CstA; cl00856 994484008795 Protein of unknown function (DUF466); Region: DUF466; cl01082 994484008796 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484008797 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484008798 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484008799 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484008800 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 994484008801 N-terminal plug; other site 994484008802 ligand-binding site [chemical binding]; other site 994484008803 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 994484008804 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 994484008805 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 994484008806 Flavin Reductases; Region: FlaRed; cl00801 994484008807 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484008808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484008809 Walker A/P-loop; other site 994484008810 ATP binding site [chemical binding]; other site 994484008811 Q-loop/lid; other site 994484008812 ABC transporter signature motif; other site 994484008813 Walker B; other site 994484008814 D-loop; other site 994484008815 H-loop/switch region; other site 994484008816 TOBE domain; Region: TOBE_2; cl01440 994484008817 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484008818 dimer interface [polypeptide binding]; other site 994484008819 conserved gate region; other site 994484008820 putative PBP binding loops; other site 994484008821 ABC-ATPase subunit interface; other site 994484008822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484008823 dimer interface [polypeptide binding]; other site 994484008824 conserved gate region; other site 994484008825 putative PBP binding loops; other site 994484008826 ABC-ATPase subunit interface; other site 994484008827 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 994484008828 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484008829 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 994484008830 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 994484008831 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 994484008832 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 994484008833 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 994484008834 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 994484008835 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_4; cd04511 994484008836 nudix motif; other site 994484008837 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484008838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008839 DNA-binding site [nucleotide binding]; DNA binding site 994484008840 FCD domain; Region: FCD; cl11656 994484008841 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484008842 Flavin Reductases; Region: FlaRed; cl00801 994484008843 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008844 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 994484008845 NAD(P) binding site [chemical binding]; other site 994484008846 catalytic residues [active] 994484008847 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484008848 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 994484008849 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 994484008850 Uncharacterized conserved protein [Function unknown]; Region: COG2308 994484008851 Domain of unknown function (DUF404); Region: DUF404; pfam04169 994484008852 Domain of unknown function (DUF407); Region: DUF407; pfam04174 994484008853 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 994484008854 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484008855 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 994484008856 Transposase domain (DUF772); Region: DUF772; cl12084 994484008857 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484008858 Surface antigen; Region: Bac_surface_Ag; cl03097 994484008859 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 994484008860 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 994484008861 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 994484008862 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484008863 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 994484008864 Gram-negative bacterial tonB protein; Region: TonB; cl10048 994484008865 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 994484008866 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484008867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008869 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 994484008870 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484008871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484008872 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 994484008873 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 994484008874 dimer interface [polypeptide binding]; other site 994484008875 catalytic triad [active] 994484008876 peroxidatic and resolving cysteines [active] 994484008877 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 994484008878 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...; Region: Biotinyl_lipoyl_domains; cl11404 994484008879 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 994484008880 Protein export membrane protein; Region: SecD_SecF; cl14618 994484008881 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 994484008882 Protein export membrane protein; Region: SecD_SecF; cl14618 994484008883 NodT family; Region: outer_NodT; TIGR01845 994484008884 Outer membrane efflux protein; Region: OEP; pfam02321 994484008885 Outer membrane efflux protein; Region: OEP; pfam02321 994484008886 enoyl-CoA hydratase; Provisional; Region: PRK06142 994484008887 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 994484008888 substrate binding site [chemical binding]; other site 994484008889 oxyanion hole (OAH) forming residues; other site 994484008890 trimer interface [polypeptide binding]; other site 994484008891 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 994484008892 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 994484008893 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 994484008894 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 994484008895 putative NADH binding site [chemical binding]; other site 994484008896 putative active site [active] 994484008897 nudix motif; other site 994484008898 putative metal binding site [ion binding]; other site 994484008899 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484008900 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484008901 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_10; cd04667 994484008902 nudix motif; other site 994484008903 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484008904 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 994484008905 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484008906 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 994484008907 ATP binding site [chemical binding]; other site 994484008908 G-X-G motif; other site 994484008909 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 994484008910 YccA-like proteins; Region: YccA_like; cd10433 994484008911 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 994484008912 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 994484008913 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484008914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484008916 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 994484008917 putative substrate binding pocket [chemical binding]; other site 994484008918 putative dimerization interface [polypeptide binding]; other site 994484008919 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 994484008920 active site 994484008921 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008922 Protease inhibitor Inh; Region: Inh; pfam02974 994484008923 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 994484008924 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 994484008925 Walker A/P-loop; other site 994484008926 ATP binding site [chemical binding]; other site 994484008927 Q-loop/lid; other site 994484008928 ABC transporter signature motif; other site 994484008929 Walker B; other site 994484008930 D-loop; other site 994484008931 H-loop/switch region; other site 994484008932 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484008933 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 994484008934 Outer membrane efflux protein; Region: OEP; pfam02321 994484008935 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484008936 Outer membrane efflux protein; Region: OEP; pfam02321 994484008937 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 994484008938 putative active site [active] 994484008939 catalytic triad [active] 994484008940 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 994484008941 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 994484008942 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484008943 Autotransporter beta-domain; Region: Autotransporter; cl02365 994484008944 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 994484008945 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484008946 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 994484008947 VRR-NUC domain; Region: VRR_NUC; cl08494 994484008948 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 994484008949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484008950 DEAD_2; Region: DEAD_2; cl14887 994484008951 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484008952 PAS domain S-box; Region: sensory_box; TIGR00229 994484008953 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 994484008954 putative active site [active] 994484008955 heme pocket [chemical binding]; other site 994484008956 PAS domain S-box; Region: sensory_box; TIGR00229 994484008957 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 994484008958 putative active site [active] 994484008959 heme pocket [chemical binding]; other site 994484008960 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 trans-...; Region: HisKA; cd00082 994484008961 dimer interface [polypeptide binding]; other site 994484008962 phosphorylation site [posttranslational modification] 994484008963 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 994484008964 ATP binding site [chemical binding]; other site 994484008965 Mg2+ binding site [ion binding]; other site 994484008966 G-X-G motif; other site 994484008967 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 994484008968 active site 994484008969 phosphorylation site [posttranslational modification] 994484008970 intermolecular recognition site; other site 994484008971 dimerization interface [polypeptide binding]; other site 994484008972 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 994484008973 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484008974 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 994484008975 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 994484008976 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 994484008977 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 994484008978 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 994484008979 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 994484008980 active site 994484008981 DNA binding site [nucleotide binding] 994484008982 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 994484008983 DNA binding site [nucleotide binding] 994484008984 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 non-...; Region: PaeLigD_Pol_like; cd04862 994484008985 nucleotide binding site [chemical binding]; other site 994484008986 Yip1 domain; Region: Yip1; cl12048 994484008987 Competence-damaged protein; Region: CinA; cl00666 994484008988 short chain dehydrogenase; Provisional; Region: PRK06701 994484008989 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 994484008990 NAD binding site [chemical binding]; other site 994484008991 metal binding site [ion binding]; metal-binding site 994484008992 active site 994484008993 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 994484008994 aspartate aminotransferase; Provisional; Region: PRK08361 994484008995 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 994484008996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484008997 homodimer interface [polypeptide binding]; other site 994484008998 catalytic residue [active] 994484008999 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009000 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484009001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484009002 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 994484009003 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484009004 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009005 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484009006 Epoxide hydrolase N terminus; Region: EHN; pfam06441 994484009007 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 994484009008 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484009009 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 994484009010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484009011 Flagellin N-methylase; Region: FliB; cl00497 994484009012 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484009013 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484009014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009015 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484009016 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 994484009017 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484009018 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484009019 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 994484009020 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484009021 outer membrane porin, OprD family; Region: OprD; pfam03573 994484009022 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 994484009023 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484009024 active site 994484009025 metal binding site [ion binding]; metal-binding site 994484009026 hexamer interface [polypeptide binding]; other site 994484009027 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484009028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484009029 Walker A/P-loop; other site 994484009030 ATP binding site [chemical binding]; other site 994484009031 Q-loop/lid; other site 994484009032 ABC transporter signature motif; other site 994484009033 Walker B; other site 994484009034 D-loop; other site 994484009035 H-loop/switch region; other site 994484009036 TOBE domain; Region: TOBE_2; cl01440 994484009037 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484009038 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009039 dimer interface [polypeptide binding]; other site 994484009040 conserved gate region; other site 994484009041 putative PBP binding loops; other site 994484009042 ABC-ATPase subunit interface; other site 994484009043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009044 dimer interface [polypeptide binding]; other site 994484009045 conserved gate region; other site 994484009046 putative PBP binding loops; other site 994484009047 ABC-ATPase subunit interface; other site 994484009048 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 994484009049 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 994484009050 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484009051 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484009052 DNA binding site [nucleotide binding] 994484009053 domain linker motif; other site 994484009054 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 994484009055 putative dimerization interface [polypeptide binding]; other site 994484009056 putative ligand binding site [chemical binding]; other site 994484009057 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 994484009058 non-specific DNA binding site [nucleotide binding]; other site 994484009059 salt bridge; other site 994484009060 sequence-specific DNA binding site [nucleotide binding]; other site 994484009061 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 994484009062 hypothetical protein; Provisional; Region: PRK08912 994484009063 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 994484009064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009065 homodimer interface [polypeptide binding]; other site 994484009066 catalytic residue [active] 994484009067 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 994484009068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009069 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484009070 argininosuccinate lyase; Provisional; Region: PRK02186 994484009071 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484009072 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484009073 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 994484009074 metal binding site [ion binding]; metal-binding site 994484009075 putative dimer interface [polypeptide binding]; other site 994484009076 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484009077 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 994484009078 putative substrate translocation pore; other site 994484009079 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 994484009080 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484009081 putative substrate translocation pore; other site 994484009082 transcriptional regulator; Provisional; Region: PRK10632 994484009083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009084 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 994484009085 putative effector binding pocket; other site 994484009086 putative dimerization interface [polypeptide binding]; other site 994484009087 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 994484009088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009089 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 994484009090 dimerizarion interface [polypeptide binding]; other site 994484009091 CrgA pocket; other site 994484009092 substrate binding pocket [chemical binding]; other site 994484009093 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 994484009094 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-...; Region: MLE; cd03318 994484009095 octamer interface [polypeptide binding]; other site 994484009096 active site 994484009097 Muconolactone delta-isomerase; Region: MIase; cl01992 994484009098 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 994484009099 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 994484009100 dimer interface [polypeptide binding]; other site 994484009101 active site 994484009102 Cupin domain; Region: Cupin_2; cl09118 994484009103 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009104 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 994484009105 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 994484009106 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 994484009107 putative alpha subunit interface [polypeptide binding]; other site 994484009108 putative active site [active] 994484009109 putative substrate binding site [chemical binding]; other site 994484009110 Fe binding site [ion binding]; other site 994484009111 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 994484009112 inter-subunit interface; other site 994484009113 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 994484009114 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 994484009115 catalytic loop [active] 994484009116 iron binding site [ion binding]; other site 994484009117 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 994484009118 FAD binding pocket [chemical binding]; other site 994484009119 FAD binding motif [chemical binding]; other site 994484009120 phosphate binding motif [ion binding]; other site 994484009121 beta-alpha-beta structure motif; other site 994484009122 NAD binding pocket [chemical binding]; other site 994484009123 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484009124 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 994484009125 putative NAD(P) binding site [chemical binding]; other site 994484009126 active site 994484009127 benzoate transport; Region: 2A0115; TIGR00895 994484009128 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 994484009129 putative substrate translocation pore; other site 994484009130 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 994484009131 outer membrane porin, OprD family; Region: OprD; pfam03573 994484009132 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484009133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009134 NAD(P) binding site [chemical binding]; other site 994484009135 active site 994484009136 conserved hypothetical protein; Region: TIGR02270 994484009137 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 994484009138 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 994484009139 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 994484009140 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484009141 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484009142 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 994484009143 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 994484009144 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 994484009145 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 994484009146 active site 994484009147 phosphorylation site [posttranslational modification] 994484009148 intermolecular recognition site; other site 994484009149 dimerization interface [polypeptide binding]; other site 994484009150 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...; Region: trans_reg_C; cd00383 994484009151 DNA binding site [nucleotide binding] 994484009152 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484009153 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484009154 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 trans-...; Region: HisKA; cd00082 994484009155 dimer interface [polypeptide binding]; other site 994484009156 phosphorylation site [posttranslational modification] 994484009157 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 994484009158 ATP binding site [chemical binding]; other site 994484009159 Mg2+ binding site [ion binding]; other site 994484009160 G-X-G motif; other site 994484009161 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484009162 short chain dehydrogenase; Provisional; Region: PRK06197 994484009163 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 994484009164 putative NAD(P) binding site [chemical binding]; other site 994484009165 active site 994484009166 TLC ATP/ADP transporter; Region: TLC; cl03940 994484009167 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484009168 Amino acid permease; Region: AA_permease; pfam00324 994484009169 ornithine cyclodeaminase; Validated; Region: PRK07589 994484009170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009171 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 994484009172 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484009173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009174 ACT domain; Region: ACT_3; cl01447 994484009175 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484009176 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 994484009177 Walker A/P-loop; other site 994484009178 ATP binding site [chemical binding]; other site 994484009179 Q-loop/lid; other site 994484009180 ABC transporter signature motif; other site 994484009181 Walker B; other site 994484009182 D-loop; other site 994484009183 H-loop/switch region; other site 994484009184 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484009185 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484009186 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 994484009187 Walker A/P-loop; other site 994484009188 ATP binding site [chemical binding]; other site 994484009189 Q-loop/lid; other site 994484009190 ABC transporter signature motif; other site 994484009191 Walker B; other site 994484009192 D-loop; other site 994484009193 H-loop/switch region; other site 994484009194 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484009195 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 994484009196 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484009197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009198 dimer interface [polypeptide binding]; other site 994484009199 conserved gate region; other site 994484009200 putative PBP binding loops; other site 994484009201 ABC-ATPase subunit interface; other site 994484009202 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484009203 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009204 dimer interface [polypeptide binding]; other site 994484009205 conserved gate region; other site 994484009206 putative PBP binding loops; other site 994484009207 ABC-ATPase subunit interface; other site 994484009208 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484009209 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 994484009210 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 994484009211 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484009212 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 994484009213 putative arabinose transporter; Provisional; Region: PRK03545 994484009214 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 994484009215 putative substrate translocation pore; other site 994484009216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009217 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484009218 classical (c) SDRs; Region: SDR_c; cd05233 994484009219 NAD(P) binding site [chemical binding]; other site 994484009220 active site 994484009221 ethanolamine permease; Region: 2A0305; TIGR00908 994484009222 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484009223 Integral membrane protein TerC family; Region: TerC; cl10468 994484009224 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 994484009225 Transporter associated domain; Region: CorC_HlyC; cl08393 994484009226 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484009227 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484009228 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484009229 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484009230 LysE type translocator; Region: LysE; cl00565 994484009231 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 994484009232 S-adenosylmethionine binding site [chemical binding]; other site 994484009233 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 994484009234 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 994484009235 outer membrane porin, OprD family; Region: OprD; pfam03573 994484009236 benzoate transport; Region: 2A0115; TIGR00895 994484009237 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 994484009238 putative substrate translocation pore; other site 994484009239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009241 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 994484009242 dimerization interface [polypeptide binding]; other site 994484009243 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 994484009244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009246 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 994484009247 dimerization interface [polypeptide binding]; other site 994484009248 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 994484009249 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 994484009250 putative di-iron ligands [ion binding]; other site 994484009251 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 994484009252 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 994484009253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009254 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484009255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009256 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 994484009257 HPP family; Region: HPP; pfam04982 994484009258 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 994484009259 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 994484009260 substrate binding site [chemical binding]; other site 994484009261 oxyanion hole (OAH) forming residues; other site 994484009262 trimer interface [polypeptide binding]; other site 994484009263 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484009264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484009265 active site 994484009266 enoyl-CoA hydratase; Provisional; Region: PRK05862 994484009267 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 994484009268 substrate binding site [chemical binding]; other site 994484009269 oxyanion hole (OAH) forming residues; other site 994484009270 trimer interface [polypeptide binding]; other site 994484009271 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484009272 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484009273 active site 994484009274 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 994484009275 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 994484009276 dimer interface [polypeptide binding]; other site 994484009277 active site 994484009278 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484009279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009280 NAD(P) binding site [chemical binding]; other site 994484009281 active site 994484009282 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 994484009283 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484009284 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 994484009285 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 994484009286 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 994484009287 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 994484009288 Ligand binding site [chemical binding]; other site 994484009289 Putative Catalytic site [active] 994484009290 DXD motif; other site 994484009291 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484009292 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 994484009293 putative NAD(P) binding site [chemical binding]; other site 994484009294 active site 994484009295 putative substrate binding site [chemical binding]; other site 994484009296 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484009297 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009298 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 994484009299 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 994484009300 domain interface [polypeptide binding]; other site 994484009301 putative active site [active] 994484009302 catalytic site [active] 994484009303 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 994484009304 domain interface [polypeptide binding]; other site 994484009305 putative active site [active] 994484009306 catalytic site [active] 994484009307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484009308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484009309 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 994484009310 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 994484009311 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484009312 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484009313 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 994484009314 N-terminal plug; other site 994484009315 ligand-binding site [chemical binding]; other site 994484009316 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484009317 FecR protein; Region: FecR; pfam04773 994484009318 RNA polymerase sigma factor; Provisional; Region: PRK12528 994484009319 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484009320 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484009321 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 994484009322 Histidine kinase; Region: HisKA_3; pfam07730 994484009323 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 994484009324 ATP binding site [chemical binding]; other site 994484009325 Mg2+ binding site [ion binding]; other site 994484009326 G-X-G motif; other site 994484009327 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484009328 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 994484009329 active site 994484009330 phosphorylation site [posttranslational modification] 994484009331 intermolecular recognition site; other site 994484009332 dimerization interface [polypeptide binding]; other site 994484009333 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 994484009334 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...; Region: LuxR_C_like; cd06170 994484009335 DNA binding residues [nucleotide binding] 994484009336 dimerization interface [polypeptide binding]; other site 994484009337 CHASE3 domain; Region: CHASE3; cl05000 994484009338 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484009339 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 994484009340 putative active site [active] 994484009341 heme pocket [chemical binding]; other site 994484009342 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 trans-...; Region: HisKA; cd00082 994484009343 dimer interface [polypeptide binding]; other site 994484009344 phosphorylation site [posttranslational modification] 994484009345 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 994484009346 ATP binding site [chemical binding]; other site 994484009347 G-X-G motif; other site 994484009348 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009349 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 994484009350 active site 994484009351 phosphorylation site [posttranslational modification] 994484009352 intermolecular recognition site; other site 994484009353 dimerization interface [polypeptide binding]; other site 994484009354 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009355 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 994484009356 active site 994484009357 phosphorylation site [posttranslational modification] 994484009358 intermolecular recognition site; other site 994484009359 dimerization interface [polypeptide binding]; other site 994484009360 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009361 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009362 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009363 Gram-negative bacterial tonB protein; Region: TonB; cl10048 994484009364 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 994484009365 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484009366 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 994484009367 Phytase; Region: Phytase; pfam02333 994484009368 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 994484009369 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...; Region: OM_channels; cl00284 994484009370 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 994484009371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484009372 metal binding site [ion binding]; metal-binding site 994484009373 active site 994484009374 I-site; other site 994484009375 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484009376 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009377 FOG: CBS domain [General function prediction only]; Region: COG0517 994484009378 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-...; Region: CBS_pair_10; cd04623 994484009379 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain...; Region: Rieske_NirD; cd03529 994484009380 nitrite reductase subunit NirD; Provisional; Region: PRK14989 994484009381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009383 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484009384 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484009385 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484009386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484009387 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484009388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 994484009389 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 994484009390 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; cl12011 994484009391 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs...; Region: LRR_RI; cl15309 994484009392 Leucine-rich repeats; other site 994484009393 Substrate binding site [chemical binding]; other site 994484009394 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 994484009395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009396 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 994484009397 dimerization interface [polypeptide binding]; other site 994484009398 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484009399 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 994484009400 putative substrate translocation pore; other site 994484009401 L-rhamnonate dehydratase; Provisional; Region: PRK15440 994484009402 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved...; Region: MR_like_2; cd03327 994484009403 putative active site pocket [active] 994484009404 putative metal binding site [ion binding]; other site 994484009405 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 994484009406 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 994484009407 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 994484009408 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009409 NAD binding site [chemical binding]; other site 994484009410 catalytic residues [active] 994484009411 substrate binding site [chemical binding]; other site 994484009412 LysE type translocator; Region: LysE; cl00565 994484009413 Cupin domain; Region: Cupin_2; cl09118 994484009414 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009416 Domain of unknown function (DUF336); Region: DUF336; cl01249 994484009417 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484009418 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...; Region: PBPb; cd00134 994484009419 substrate binding pocket [chemical binding]; other site 994484009420 membrane-bound complex binding site; other site 994484009421 hinge residues; other site 994484009422 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 994484009423 homotrimer interaction site [polypeptide binding]; other site 994484009424 putative active site [active] 994484009425 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 994484009426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009427 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484009428 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 994484009429 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484009430 FAD dependent oxidoreductase; Region: DAO; pfam01266 994484009431 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 994484009432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009433 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 994484009434 putative dimerization interface [polypeptide binding]; other site 994484009435 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484009436 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)...; Region: Rieske; cl00938 994484009437 iron-sulfur cluster [ion binding]; other site 994484009438 [2Fe-2S] cluster binding site [ion binding]; other site 994484009439 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 994484009440 alpha subunit interface [polypeptide binding]; other site 994484009441 active site 994484009442 substrate binding site [chemical binding]; other site 994484009443 Fe binding site [ion binding]; other site 994484009444 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484009445 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-...; Region: PDR_like; cd06185 994484009446 FMN-binding pocket [chemical binding]; other site 994484009447 flavin binding motif; other site 994484009448 phosphate binding motif [ion binding]; other site 994484009449 beta-alpha-beta structure motif; other site 994484009450 NAD binding pocket [chemical binding]; other site 994484009451 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 994484009452 catalytic loop [active] 994484009453 iron binding site [ion binding]; other site 994484009454 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484009455 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484009456 DNA-binding site [nucleotide binding]; DNA binding site 994484009457 FCD domain; Region: FCD; cl11656 994484009458 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 994484009459 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484009460 FecR protein; Region: FecR; pfam04773 994484009461 Penicillin amidase; Region: Penicil_amidase; pfam01804 994484009462 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 four-...; Region: Ntn_hydrolase; cl00467 994484009463 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-...; Region: Ntn_CA; cd01936 994484009464 active site 994484009465 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 four-...; Region: Ntn_hydrolase; cl00467 994484009466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009467 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 994484009468 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; cl11420 994484009469 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484009470 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 994484009471 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 994484009472 putative catalytic cysteine [active] 994484009473 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484009474 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484009475 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484009476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484009477 Coenzyme A binding pocket [chemical binding]; other site 994484009478 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484009479 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009480 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484009481 Protein of unknown function, DUF; Region: DUF411; cl01142 994484009482 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 994484009483 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 994484009484 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484009485 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484009486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009487 glycogen synthase; Provisional; Region: glgA; PRK00654 994484009488 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 994484009489 ADP-binding pocket [chemical binding]; other site 994484009490 homodimer interface [polypeptide binding]; other site 994484009491 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 994484009492 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 994484009493 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484009494 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 994484009495 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 994484009496 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 994484009497 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 994484009498 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484009499 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 994484009500 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 994484009501 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 994484009502 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 994484009503 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 994484009504 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 994484009505 putative catalytic site [active] 994484009506 putative metal binding site [ion binding]; other site 994484009507 putative phosphate binding site [ion binding]; other site 994484009508 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43...; Region: PL2_Passenger_AT; cd01344 994484009509 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484009510 Autotransporter beta-domain; Region: Autotransporter; cl02365 994484009511 Autotransporter beta-domain; Region: Autotransporter; cl02365 994484009512 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 994484009513 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009514 tetrameric interface [polypeptide binding]; other site 994484009515 activator binding site; other site 994484009516 NADP binding site [chemical binding]; other site 994484009517 substrate binding site [chemical binding]; other site 994484009518 catalytic residues [active] 994484009519 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484009520 EamA-like transporter family; Region: EamA; cl01037 994484009521 EamA-like transporter family; Region: EamA; cl01037 994484009522 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484009523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009524 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 994484009525 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 994484009526 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484009527 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484009528 DNA helicase IV; Provisional; Region: helD; PRK11054 994484009529 Pirin-related protein [General function prediction only]; Region: COG1741 994484009530 Cupin domain; Region: Cupin_2; cl09118 994484009531 phosphoglucomutase; Validated; Region: PRK07564 994484009532 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 994484009533 active site 994484009534 substrate binding site [chemical binding]; other site 994484009535 metal binding site [ion binding]; metal-binding site 994484009536 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 994484009537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484009538 DNA-binding site [nucleotide binding]; DNA binding site 994484009539 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 994484009540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009541 homodimer interface [polypeptide binding]; other site 994484009542 catalytic residue [active] 994484009543 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 994484009544 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484009545 putative NAD(P) binding site [chemical binding]; other site 994484009546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009547 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009548 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 994484009549 putative substrate binding pocket [chemical binding]; other site 994484009550 putative dimerization interface [polypeptide binding]; other site 994484009551 LysE type translocator; Region: LysE; cl00565 994484009552 Cache domain; Region: Cache_1; pfam02743 994484009553 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484009554 dimerization interface [polypeptide binding]; other site 994484009555 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009556 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484009557 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484009558 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484009559 Walker A/P-loop; other site 994484009560 ATP binding site [chemical binding]; other site 994484009561 Q-loop/lid; other site 994484009562 ABC transporter signature motif; other site 994484009563 Walker B; other site 994484009564 D-loop; other site 994484009565 H-loop/switch region; other site 994484009566 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484009567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009568 dimer interface [polypeptide binding]; other site 994484009569 conserved gate region; other site 994484009570 putative PBP binding loops; other site 994484009571 ABC-ATPase subunit interface; other site 994484009572 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484009573 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009574 dimer interface [polypeptide binding]; other site 994484009575 conserved gate region; other site 994484009576 putative PBP binding loops; other site 994484009577 ABC-ATPase subunit interface; other site 994484009578 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484009579 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...; Region: PBPb; cd00134 994484009580 substrate binding pocket [chemical binding]; other site 994484009581 membrane-bound complex binding site; other site 994484009582 hinge residues; other site 994484009583 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 994484009584 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 994484009585 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 994484009586 homodimer interface [polypeptide binding]; other site 994484009587 substrate-cofactor binding pocket; other site 994484009588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009589 catalytic residue [active] 994484009590 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 994484009591 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009592 NAD(P) binding site [chemical binding]; other site 994484009593 catalytic residues [active] 994484009594 homoserine dehydrogenase; Provisional; Region: PRK06270 994484009595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009596 NAD(P) binding pocket [chemical binding]; other site 994484009597 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 994484009598 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484009599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009600 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 994484009601 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 994484009602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484009603 catalytic residue [active] 994484009604 DinB superfamily; Region: DinB_2; cl00986 994484009605 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484009606 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484009607 inhibitor site; inhibition site 994484009608 active site 994484009609 dimer interface [polypeptide binding]; other site 994484009610 catalytic residue [active] 994484009611 B3/4 domain; Region: B3_4; cl11458 994484009612 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 994484009613 non-specific DNA binding site [nucleotide binding]; other site 994484009614 salt bridge; other site 994484009615 sequence-specific DNA binding site [nucleotide binding]; other site 994484009616 Cupin domain; Region: Cupin_2; cl09118 994484009617 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484009618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009619 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 994484009620 dimerization interface [polypeptide binding]; other site 994484009621 substrate binding pocket [chemical binding]; other site 994484009622 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484009623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009624 NAD(P) binding site [chemical binding]; other site 994484009625 active site 994484009626 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 994484009627 D-galactonate transporter; Region: 2A0114; TIGR00893 994484009628 putative substrate translocation pore; other site 994484009629 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 994484009630 TPP-binding site [chemical binding]; other site 994484009631 dimer interface [polypeptide binding]; other site 994484009632 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 994484009633 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 994484009634 PYR/PP interface [polypeptide binding]; other site 994484009635 dimer interface [polypeptide binding]; other site 994484009636 TPP binding site [chemical binding]; other site 994484009637 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484009638 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 994484009639 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484009640 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; cl11391 994484009641 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 994484009642 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; cl11605 994484009643 BON domain; Region: BON; cl02771 994484009644 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 994484009645 BON domain; Region: BON; cl02771 994484009646 BON domain; Region: BON; cl02771 994484009647 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 994484009648 Erythromycin esterase; Region: Erythro_esteras; pfam05139 994484009649 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484009650 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484009651 universal stress protein UspE; Provisional; Region: PRK11175 994484009652 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 994484009653 Ligand Binding Site [chemical binding]; other site 994484009654 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 994484009655 Ligand Binding Site [chemical binding]; other site 994484009656 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484009657 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484009658 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 994484009659 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 994484009660 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 994484009661 active site 994484009662 motif I; other site 994484009663 motif II; other site 994484009664 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; cl11391 994484009665 AAA-like domain; Region: AAA_10; pfam12846 994484009666 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; cl11391 994484009667 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 994484009668 Amino acid permease; Region: AA_permease; pfam00324 994484009669 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484009670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009671 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484009672 transcriptional regulator EutR; Provisional; Region: PRK10130 994484009673 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 994484009674 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 994484009675 inhibitor-cofactor binding pocket; inhibition site 994484009676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009677 catalytic residue [active] 994484009678 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484009679 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009680 NAD(P) binding site [chemical binding]; other site 994484009681 catalytic residues [active] 994484009682 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 994484009683 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 994484009684 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 994484009685 NADP binding site [chemical binding]; other site 994484009686 dimer interface [polypeptide binding]; other site 994484009687 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 994484009688 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 994484009689 dimer interface [polypeptide binding]; other site 994484009690 active site 994484009691 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 994484009692 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484009693 NodT family; Region: outer_NodT; TIGR01845 994484009694 Outer membrane efflux protein; Region: OEP; pfam02321 994484009695 Outer membrane efflux protein; Region: OEP; pfam02321 994484009696 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 994484009697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009698 NAD(P) binding site [chemical binding]; other site 994484009699 active site 994484009700 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 994484009701 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 994484009702 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 994484009703 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 994484009704 active site 994484009705 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484009706 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484009707 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_18; cd08357 994484009708 putative metal binding site [ion binding]; other site 994484009709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009710 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009711 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 994484009712 putative dimerization interface [polypeptide binding]; other site 994484009713 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484009714 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...; Region: PBPb; cl15306 994484009715 substrate binding pocket [chemical binding]; other site 994484009716 membrane-bound complex binding site; other site 994484009717 hinge residues; other site 994484009718 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484009719 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 994484009720 NodT family; Region: outer_NodT; TIGR01845 994484009721 Outer membrane efflux protein; Region: OEP; pfam02321 994484009722 Outer membrane efflux protein; Region: OEP; pfam02321 994484009723 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 994484009724 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 994484009725 TPR motif; other site 994484009726 binding surface 994484009727 circadian clock protein KaiC; Reviewed; Region: PRK09302 994484009728 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484009729 Walker A motif; other site 994484009730 ATP binding site [chemical binding]; other site 994484009731 Walker B motif; other site 994484009732 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484009733 Walker A motif; other site 994484009734 ATP binding site [chemical binding]; other site 994484009735 Walker B motif; other site 994484009736 sensory histidine kinase AtoS; Provisional; Region: PRK11360 994484009737 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 994484009738 ATP binding site [chemical binding]; other site 994484009739 Mg2+ binding site [ion binding]; other site 994484009740 G-X-G motif; other site 994484009741 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484009742 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 994484009743 active site 994484009744 phosphorylation site [posttranslational modification] 994484009745 intermolecular recognition site; other site 994484009746 dimerization interface [polypeptide binding]; other site 994484009747 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009748 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 994484009749 active site 994484009750 phosphorylation site [posttranslational modification] 994484009751 intermolecular recognition site; other site 994484009752 dimerization interface [polypeptide binding]; other site 994484009753 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009754 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 994484009755 active site 994484009756 phosphorylation site [posttranslational modification] 994484009757 intermolecular recognition site; other site 994484009758 dimerization interface [polypeptide binding]; other site 994484009759 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 trans-...; Region: HisKA; cd00082 994484009760 dimer interface [polypeptide binding]; other site 994484009761 phosphorylation site [posttranslational modification] 994484009762 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 994484009763 ATP binding site [chemical binding]; other site 994484009764 Mg2+ binding site [ion binding]; other site 994484009765 G-X-G motif; other site 994484009766 CheB methylesterase; Region: CheB_methylest; pfam01339 994484009767 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484009768 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 994484009769 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; cl12011 994484009770 CHASE3 domain; Region: CHASE3; cl05000 994484009771 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484009772 GAF domain; Region: GAF; cl00853 994484009773 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 trans-...; Region: HisKA; cl00080 994484009774 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 994484009775 ATP binding site [chemical binding]; other site 994484009776 Mg2+ binding site [ion binding]; other site 994484009777 G-X-G motif; other site 994484009778 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009779 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 994484009780 active site 994484009781 phosphorylation site [posttranslational modification] 994484009782 intermolecular recognition site; other site 994484009783 dimerization interface [polypeptide binding]; other site 994484009784 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484009785 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 994484009786 active site 994484009787 phosphorylation site [posttranslational modification] 994484009788 intermolecular recognition site; other site 994484009789 dimerization interface [polypeptide binding]; other site 994484009790 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009791 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 994484009792 active site 994484009793 phosphorylation site [posttranslational modification] 994484009794 intermolecular recognition site; other site 994484009795 dimerization interface [polypeptide binding]; other site 994484009796 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 994484009797 active site 994484009798 phosphorylation site [posttranslational modification] 994484009799 intermolecular recognition site; other site 994484009800 dimerization interface [polypeptide binding]; other site 994484009801 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484009802 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 994484009803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009804 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009805 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009806 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484009807 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 994484009808 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 994484009809 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009810 putative PBP binding loops; other site 994484009811 ABC-ATPase subunit interface; other site 994484009812 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484009813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484009814 dimer interface [polypeptide binding]; other site 994484009815 conserved gate region; other site 994484009816 putative PBP binding loops; other site 994484009817 ABC-ATPase subunit interface; other site 994484009818 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484009819 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 994484009820 Walker A/P-loop; other site 994484009821 ATP binding site [chemical binding]; other site 994484009822 Q-loop/lid; other site 994484009823 ABC transporter signature motif; other site 994484009824 Walker B; other site 994484009825 D-loop; other site 994484009826 H-loop/switch region; other site 994484009827 TOBE domain; Region: TOBE_2; cl01440 994484009828 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 994484009829 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 994484009830 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 994484009831 D-xylulose kinases, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 994484009832 N- and C-terminal domain interface [polypeptide binding]; other site 994484009833 D-xylulose kinase; Region: XylB; TIGR01312 994484009834 active site 994484009835 catalytic site [active] 994484009836 metal binding site [ion binding]; metal-binding site 994484009837 xylulose binding site [chemical binding]; other site 994484009838 ATP binding site [chemical binding]; other site 994484009839 putative homodimer interface [polypeptide binding]; other site 994484009840 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 994484009841 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 994484009842 putative substrate binding site [chemical binding]; other site 994484009843 putative ATP binding site [chemical binding]; other site 994484009844 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 994484009845 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 994484009846 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 994484009847 tetramer interface [polypeptide binding]; other site 994484009848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009849 catalytic residue [active] 994484009850 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 994484009851 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 994484009852 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 994484009853 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 994484009854 putative DNA binding site [nucleotide binding]; other site 994484009855 putative homodimer interface [polypeptide binding]; other site 994484009856 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 994484009857 active site 994484009858 DNA binding site [nucleotide binding] 994484009859 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 994484009860 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 994484009861 DNA binding site [nucleotide binding] 994484009862 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 non-...; Region: PaeLigD_Pol_like; cd04862 994484009863 nucleotide binding site [chemical binding]; other site 994484009864 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl01426 994484009865 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 994484009866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484009867 Walker A/P-loop; other site 994484009868 ATP binding site [chemical binding]; other site 994484009869 Q-loop/lid; other site 994484009870 ABC transporter signature motif; other site 994484009871 Walker B; other site 994484009872 D-loop; other site 994484009873 H-loop/switch region; other site 994484009874 ABC transporter; Region: ABC_tran_2; pfam12848 994484009875 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...; Region: ABCF_EF-3; cd03221 994484009876 major facilitator superfamily transporter; Provisional; Region: PRK05122 994484009877 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 994484009878 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484009879 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484009880 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 994484009881 dimerization interface [polypeptide binding]; other site 994484009882 Protein of unknown function (DUF419); Region: DUF419; cl15265 994484009883 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 994484009884 Bacitracin resistance protein BacA; Region: BacA; cl00858 994484009885 Cache domain; Region: Cache_2; cl07034 994484009886 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484009887 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009888 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484009889 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 994484009890 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 994484009891 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 994484009892 putative active site [active] 994484009893 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484009894 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...; Region: AAA; cd00009 994484009895 Walker A motif; other site 994484009896 ATP binding site [chemical binding]; other site 994484009897 Walker B motif; other site 994484009898 arginine finger; other site 994484009899 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484009900 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484009901 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484009902 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484009903 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; cl09110 994484009904 transmembrane helices; other site 994484009905 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 994484009906 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 994484009907 active site 994484009908 motif I; other site 994484009909 motif II; other site 994484009910 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; cl11391 994484009911 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 994484009912 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 994484009913 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 994484009914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009915 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 994484009916 hypothetical protein; Provisional; Region: PRK10649 994484009917 Sulfatase; Region: Sulfatase; cl10460 994484009918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484009919 Coenzyme A binding pocket [chemical binding]; other site 994484009920 Predicted ATPase [General function prediction only]; Region: COG1485 994484009921 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 994484009922 Predicted transcriptional regulator [Transcription]; Region: COG2378 994484009923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009924 Late embryogenesis abundant protein; Region: LEA_2; cl12118 994484009925 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 994484009926 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484009927 putative active site [active] 994484009928 catalytic triad [active] 994484009929 putative dimer interface [polypeptide binding]; other site 994484009930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009932 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 994484009933 putative substrate binding pocket [chemical binding]; other site 994484009934 putative dimerization interface [polypeptide binding]; other site 994484009935 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 994484009936 feruloyl-CoA synthase; Reviewed; Region: PRK08180 994484009937 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009938 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 994484009939 NAD(P) binding site [chemical binding]; other site 994484009940 catalytic residues [active] 994484009941 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 994484009942 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 994484009943 substrate binding site [chemical binding]; other site 994484009944 oxyanion hole (OAH) forming residues; other site 994484009945 trimer interface [polypeptide binding]; other site 994484009946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484009947 outer membrane porin, OprD family; Region: OprD; pfam03573 994484009948 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 994484009949 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 994484009950 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484009951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009952 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484009953 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 994484009954 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 994484009955 FeS/SAM binding site; other site 994484009956 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 994484009957 ATP cone domain; Region: ATP-cone; pfam03477 994484009958 Class III ribonucleotide reductase; Region: RNR_III; cd01675 994484009959 effector binding site; other site 994484009960 active site 994484009961 Zn binding site [ion binding]; other site 994484009962 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 994484009963 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 994484009964 FeS/SAM binding site; other site 994484009965 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 994484009966 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484009967 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 994484009968 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 994484009969 nitrate reductase, beta subunit; Region: narH; TIGR01660 994484009970 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 994484009971 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...; Region: MopB_Nitrate-R-NarG-like; cd02750 994484009972 [4Fe-4S] binding site [ion binding]; other site 994484009973 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 994484009974 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 994484009975 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 994484009976 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...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 994484009977 molybdopterin cofactor binding site; other site 994484009978 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 994484009979 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 994484009980 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 994484009981 putative substrate translocation pore; other site 994484009982 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 994484009983 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484009984 dimerization interface [polypeptide binding]; other site 994484009985 Histidine kinase; Region: HisKA_3; pfam07730 994484009986 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 994484009987 ATP binding site [chemical binding]; other site 994484009988 Mg2+ binding site [ion binding]; other site 994484009989 G-X-G motif; other site 994484009990 transcriptional regulator NarL; Provisional; Region: PRK10651 994484009991 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 994484009992 active site 994484009993 phosphorylation site [posttranslational modification] 994484009994 intermolecular recognition site; other site 994484009995 dimerization interface [polypeptide binding]; other site 994484009996 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...; Region: LuxR_C_like; cd06170 994484009997 DNA binding residues [nucleotide binding] 994484009998 dimerization interface [polypeptide binding]; other site 994484009999 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484010000 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 994484010001 ligand binding site [chemical binding]; other site 994484010002 flexible hinge region; other site 994484010003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010004 DGC domain; Region: DGC; cl01742 994484010005 SCP-2 sterol transfer family; Region: SCP2; cl01225 994484010006 Peptidase family U32; Region: Peptidase_U32; cl03113 994484010007 Peptidase family U32; Region: Peptidase_U32; cl03113 994484010008 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 994484010009 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 994484010010 dimer interface [polypeptide binding]; other site 994484010011 putative functional site; other site 994484010012 putative MPT binding site; other site 994484010013 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 994484010014 MPT binding site; other site 994484010015 trimer interface [polypeptide binding]; other site 994484010016 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 994484010017 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484010018 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 994484010019 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 994484010020 GAF domain; Region: GAF; cl00853 994484010021 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...; Region: AAA; cd00009 994484010022 Walker A motif; other site 994484010023 ATP binding site [chemical binding]; other site 994484010024 Walker B motif; other site 994484010025 arginine finger; other site 994484010026 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 994484010027 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 994484010028 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; cl11605 994484010029 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; cl11605 994484010030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 994484010031 NnrS protein; Region: NnrS; cl01258 994484010032 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 994484010033 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 994484010034 ligand binding site [chemical binding]; other site 994484010035 flexible hinge region; other site 994484010036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010037 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 994484010038 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 994484010039 metal ion-dependent adhesion site (MIDAS); other site 994484010040 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...; Region: Heme_Cu_Oxidase_I; cl00275 994484010041 Low-spin heme binding site [chemical binding]; other site 994484010042 D-pathway; other site 994484010043 Binuclear center (active site) [active] 994484010044 K-pathway; other site 994484010045 Putative proton exit pathway; other site 994484010046 Putative water exit pathway; other site 994484010047 Cytochrome c; Region: Cytochrom_C; cl11414 994484010048 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits...; Region: NorE_like; cd02862 994484010049 Subunit I/III interface [polypeptide binding]; other site 994484010050 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 994484010051 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...; Region: AAA; cd00009 994484010052 Walker A motif; other site 994484010053 ATP binding site [chemical binding]; other site 994484010054 Walker B motif; other site 994484010055 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 994484010056 Cytochrome c; Region: Cytochrom_C; cl11414 994484010057 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 994484010058 Cytochrome c; Region: Cytochrom_C; cl11414 994484010059 Cytochrome c; Region: Cytochrom_C; cl11414 994484010060 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 994484010061 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010062 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010063 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010064 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010066 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 994484010067 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 994484010068 FeS/SAM binding site; other site 994484010069 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 994484010070 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484010071 Cytochrome c; Region: Cytochrom_C; cl11414 994484010072 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 994484010073 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...; Region: WD40; cl02567 994484010074 structural tetrad; other site 994484010075 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...; Region: OM_channels; cl00284 994484010076 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 994484010077 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 994484010078 active site 994484010079 tetramer interface [polypeptide binding]; other site 994484010080 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 994484010081 D-galactonate transporter; Region: 2A0114; TIGR00893 994484010082 putative substrate translocation pore; other site 994484010083 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 994484010084 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010085 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 994484010086 putative dimerization interface [polypeptide binding]; other site 994484010087 putative substrate binding pocket [chemical binding]; other site 994484010088 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 994484010089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010090 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484010091 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 994484010092 putative effector binding pocket; other site 994484010093 dimerization interface [polypeptide binding]; other site 994484010094 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 994484010095 active site 1 [active] 994484010096 dimer interface [polypeptide binding]; other site 994484010097 hexamer interface [polypeptide binding]; other site 994484010098 active site 2 [active] 994484010099 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484010100 classical (c) SDRs; Region: SDR_c; cd05233 994484010101 NAD(P) binding site [chemical binding]; other site 994484010102 active site 994484010103 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484010104 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 994484010105 N-terminal plug; other site 994484010106 ligand-binding site [chemical binding]; other site 994484010107 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 994484010108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484010109 DNA-binding site [nucleotide binding]; DNA binding site 994484010110 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 994484010111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010112 homodimer interface [polypeptide binding]; other site 994484010113 catalytic residue [active] 994484010114 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 994484010115 putative substrate translocation pore; other site 994484010116 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484010117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484010118 DNA-binding site [nucleotide binding]; DNA binding site 994484010119 FCD domain; Region: FCD; cl11656 994484010120 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 994484010121 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 994484010122 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484010123 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484010124 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 994484010125 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 994484010126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484010127 PAS fold; Region: PAS_4; pfam08448 994484010128 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010130 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484010131 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...; Region: PBPb; cd00134 994484010132 substrate binding pocket [chemical binding]; other site 994484010133 membrane-bound complex binding site; other site 994484010134 hinge residues; other site 994484010135 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 994484010136 substrate binding site [chemical binding]; other site 994484010137 Protein of unknown function (DUF521); Region: DUF521; pfam04412 994484010138 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 994484010139 substrate binding site [chemical binding]; other site 994484010140 ligand binding site [chemical binding]; other site 994484010141 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484010142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484010143 dimer interface [polypeptide binding]; other site 994484010144 conserved gate region; other site 994484010145 putative PBP binding loops; other site 994484010146 ABC-ATPase subunit interface; other site 994484010147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484010148 dimer interface [polypeptide binding]; other site 994484010149 conserved gate region; other site 994484010150 putative PBP binding loops; other site 994484010151 ABC-ATPase subunit interface; other site 994484010152 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484010153 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484010154 Walker A/P-loop; other site 994484010155 ATP binding site [chemical binding]; other site 994484010156 Q-loop/lid; other site 994484010157 ABC transporter signature motif; other site 994484010158 Walker B; other site 994484010159 D-loop; other site 994484010160 H-loop/switch region; other site 994484010161 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 994484010162 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 994484010163 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484010164 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484010165 inhibitor site; inhibition site 994484010166 active site 994484010167 dimer interface [polypeptide binding]; other site 994484010168 catalytic residue [active] 994484010169 DinB superfamily; Region: DinB_2; cl00986 994484010170 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 994484010171 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 994484010172 putative NAD(P) binding site [chemical binding]; other site 994484010173 catalytic Zn binding site [ion binding]; other site 994484010174 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 994484010175 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 994484010176 E3 interaction surface; other site 994484010177 lipoyl attachment site [posttranslational modification]; other site 994484010178 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 994484010179 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 994484010180 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 994484010181 alpha subunit interface [polypeptide binding]; other site 994484010182 TPP binding site [chemical binding]; other site 994484010183 heterodimer interface [polypeptide binding]; other site 994484010184 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484010185 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 994484010186 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 994484010187 tetramer interface [polypeptide binding]; other site 994484010188 TPP-binding site [chemical binding]; other site 994484010189 heterodimer interface [polypeptide binding]; other site 994484010190 phosphorylation loop region [posttranslational modification] 994484010191 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 994484010192 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484010193 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 994484010194 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...; Region: AAA; cd00009 994484010195 Walker A motif; other site 994484010196 ATP binding site [chemical binding]; other site 994484010197 Walker B motif; other site 994484010198 arginine finger; other site 994484010199 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484010200 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 994484010201 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 994484010202 catalytic residues [active] 994484010203 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484010204 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 994484010205 osmolarity response regulator; Provisional; Region: ompR; PRK09468 994484010206 active site 994484010207 phosphorylation site [posttranslational modification] 994484010208 intermolecular recognition site; other site 994484010209 dimerization interface [polypeptide binding]; other site 994484010210 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...; Region: trans_reg_C; cd00383 994484010211 DNA binding site [nucleotide binding] 994484010212 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484010213 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484010214 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 trans-...; Region: HisKA; cl00080 994484010215 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 994484010216 ATP binding site [chemical binding]; other site 994484010217 Mg2+ binding site [ion binding]; other site 994484010218 G-X-G motif; other site 994484010219 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 994484010220 thiamine pyrophosphate protein; Provisional; Region: PRK08273 994484010221 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 994484010222 PYR/PP interface [polypeptide binding]; other site 994484010223 tetramer interface [polypeptide binding]; other site 994484010224 dimer interface [polypeptide binding]; other site 994484010225 TPP binding site [chemical binding]; other site 994484010226 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484010227 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX...; Region: TPP_POX; cd02014 994484010228 TPP-binding site [chemical binding]; other site 994484010229 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 994484010230 CHASE4 domain; Region: CHASE4; cl01308 994484010231 PAS domain S-box; Region: sensory_box; TIGR00229 994484010232 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 994484010233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484010234 metal binding site [ion binding]; metal-binding site 994484010235 active site 994484010236 I-site; other site 994484010237 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 994484010238 haemagglutination activity domain; Region: Haemagg_act; cl05436 994484010239 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 994484010240 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 994484010241 general secretion pathway protein F; Region: GspF; TIGR02120 994484010242 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 994484010243 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 994484010244 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 994484010245 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 994484010246 Walker A motif; other site 994484010247 ATP binding site [chemical binding]; other site 994484010248 Walker B motif; other site 994484010249 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 994484010250 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484010251 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484010252 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484010253 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 994484010254 General secretion pathway, M protein; Region: GspM; cl01222 994484010255 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 994484010256 GspL periplasmic domain; Region: GspL_C; cl14909 994484010257 General secretion pathway protein K; Region: GspK; pfam03934 994484010258 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 994484010259 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 994484010260 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 994484010261 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 994484010262 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 994484010263 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 994484010264 Type II transport protein GspH; Region: GspH; pfam12019 994484010265 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 994484010266 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 994484010267 Pseudopilin GspJ; Region: GspJ; pfam11612 994484010268 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484010269 FecR protein; Region: FecR; pfam04773 994484010270 RNA polymerase sigma factor; Reviewed; Region: PRK12527 994484010271 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484010272 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 994484010273 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484010274 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 994484010275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484010276 DNA-binding site [nucleotide binding]; DNA binding site 994484010277 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 994484010278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010279 homodimer interface [polypeptide binding]; other site 994484010280 catalytic residue [active] 994484010281 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484010282 Cupin domain; Region: Cupin_2; cl09118 994484010283 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 994484010284 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484010285 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484010286 DNA binding site [nucleotide binding] 994484010287 domain linker motif; other site 994484010288 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 994484010289 putative dimerization interface [polypeptide binding]; other site 994484010290 putative ligand binding site [chemical binding]; other site 994484010291 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 994484010292 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 994484010293 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 994484010294 substrate binding site [chemical binding]; other site 994484010295 ATP binding site [chemical binding]; other site 994484010296 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 994484010297 D-galactonate transporter; Region: 2A0114; TIGR00893 994484010298 putative substrate translocation pore; other site 994484010299 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 994484010300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010301 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484010302 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484010303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484010304 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 994484010305 Protein of unknown function DUF58; Region: DUF58; pfam01882 994484010306 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-...; Region: vWA_BatA_type; cd01467 994484010307 metal ion-dependent adhesion site (MIDAS); other site 994484010308 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 994484010309 metal ion-dependent adhesion site (MIDAS); other site 994484010310 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 994484010311 TPR motif; other site 994484010312 binding surface 994484010313 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 994484010314 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 994484010315 exonuclease subunit SbcD; Provisional; Region: PRK10966 994484010316 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 994484010317 active site 994484010318 metal binding site [ion binding]; metal-binding site 994484010319 DNA binding site [nucleotide binding] 994484010320 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 994484010321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484010322 Walker A/P-loop; other site 994484010323 ATP binding site [chemical binding]; other site 994484010324 Q-loop/lid; other site 994484010325 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 994484010326 exonuclease subunit SbcC; Provisional; Region: PRK10246 994484010327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484010328 ABC transporter signature motif; other site 994484010329 Walker B; other site 994484010330 D-loop; other site 994484010331 H-loop/switch region; other site 994484010332 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484010333 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484010334 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 994484010335 putative N-terminal domain interface [polypeptide binding]; other site 994484010336 putative dimer interface [polypeptide binding]; other site 994484010337 putative substrate binding pocket (H-site) [chemical binding]; other site 994484010338 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 994484010339 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 994484010340 dimer interface [polypeptide binding]; other site 994484010341 NADP binding site [chemical binding]; other site 994484010342 catalytic residues [active] 994484010343 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484010344 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 994484010345 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484010346 putative substrate translocation pore; other site 994484010347 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 994484010348 Dehydratase family; Region: ILVD_EDD; cl00340 994484010349 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484010350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484010351 DNA-binding site [nucleotide binding]; DNA binding site 994484010352 FCD domain; Region: FCD; cl11656 994484010353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484010354 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484010355 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484010356 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 994484010357 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484010358 Ycf48-like protein; Provisional; Region: PRK13684 994484010359 aminopeptidase N; Provisional; Region: pepN; PRK14015 994484010360 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 994484010361 active site 994484010362 Zn binding site [ion binding]; other site 994484010363 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 994484010364 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 994484010365 Rhomboid family; Region: Rhomboid; cl11446 994484010366 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484010367 active site 994484010368 metal binding site [ion binding]; metal-binding site 994484010369 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 994484010370 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 994484010371 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 994484010372 arsenical pump membrane protein; Provisional; Region: PRK15445 994484010373 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 994484010374 transmembrane helices; other site 994484010375 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484010376 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 994484010377 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 994484010378 dimerization interface [polypeptide binding]; other site 994484010379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484010380 Coenzyme A binding pocket [chemical binding]; other site 994484010381 Proteobacterial; Region: dnaQ_proteo; TIGR01406 994484010382 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 994484010383 active site 994484010384 substrate binding site [chemical binding]; other site 994484010385 catalytic site [active] 994484010386 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 994484010387 RNA/DNA hybrid binding site [nucleotide binding]; other site 994484010388 active site 994484010389 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; cl12011 994484010390 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484010391 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 994484010392 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 994484010393 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484010394 catalytic residue [active] 994484010395 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 994484010396 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 994484010397 putative peptidoglycan binding site; other site 994484010398 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 994484010399 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 994484010400 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 994484010401 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 994484010402 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484010403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484010404 dimer interface [polypeptide binding]; other site 994484010405 conserved gate region; other site 994484010406 putative PBP binding loops; other site 994484010407 ABC-ATPase subunit interface; other site 994484010408 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 994484010409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484010410 dimer interface [polypeptide binding]; other site 994484010411 conserved gate region; other site 994484010412 putative PBP binding loops; other site 994484010413 ABC-ATPase subunit interface; other site 994484010414 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 994484010415 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 994484010416 Walker A/P-loop; other site 994484010417 ATP binding site [chemical binding]; other site 994484010418 Q-loop/lid; other site 994484010419 ABC transporter signature motif; other site 994484010420 Walker B; other site 994484010421 D-loop; other site 994484010422 H-loop/switch region; other site 994484010423 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484010424 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 994484010425 Walker A/P-loop; other site 994484010426 ATP binding site [chemical binding]; other site 994484010427 Q-loop/lid; other site 994484010428 ABC transporter signature motif; other site 994484010429 Walker B; other site 994484010430 D-loop; other site 994484010431 H-loop/switch region; other site 994484010432 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484010433 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 994484010434 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 994484010435 NAD binding site [chemical binding]; other site 994484010436 homotetramer interface [polypeptide binding]; other site 994484010437 homodimer interface [polypeptide binding]; other site 994484010438 substrate binding site [chemical binding]; other site 994484010439 active site 994484010440 GAF domain; Region: GAF; cl00853 994484010441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484010442 metal binding site [ion binding]; metal-binding site 994484010443 active site 994484010444 I-site; other site 994484010445 Cupin domain; Region: Cupin_2; cl09118 994484010446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010447 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010449 LysE type translocator; Region: LysE; cl00565 994484010450 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 994484010451 Cation transport protein; Region: TrkH; cl10514 994484010452 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 994484010453 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 994484010454 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 994484010455 DNA binding site [nucleotide binding] 994484010456 active site 994484010457 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 994484010458 endonuclease III; Region: ENDO3c; smart00478 994484010459 minor groove reading motif; other site 994484010460 helix-hairpin-helix signature motif; other site 994484010461 substrate binding pocket [chemical binding]; other site 994484010462 active site 994484010463 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 994484010464 MltA-interacting protein MipA; Region: MipA; cl01504 994484010465 sensor protein RstB; Provisional; Region: PRK10604 994484010466 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484010467 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 trans-...; Region: HisKA; cd00082 994484010468 dimer interface [polypeptide binding]; other site 994484010469 phosphorylation site [posttranslational modification] 994484010470 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 994484010471 ATP binding site [chemical binding]; other site 994484010472 Mg2+ binding site [ion binding]; other site 994484010473 G-X-G motif; other site 994484010474 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 994484010475 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 994484010476 active site 994484010477 phosphorylation site [posttranslational modification] 994484010478 intermolecular recognition site; other site 994484010479 dimerization interface [polypeptide binding]; other site 994484010480 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...; Region: trans_reg_C; cd00383 994484010481 DNA binding site [nucleotide binding] 994484010482 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 994484010483 active site 994484010484 dinuclear metal binding site [ion binding]; other site 994484010485 dimerization interface [polypeptide binding]; other site 994484010486 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 994484010487 universal stress protein UspE; Provisional; Region: PRK11175 994484010488 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 994484010489 Ligand Binding Site [chemical binding]; other site 994484010490 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 994484010491 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 994484010492 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change...; Region: AcnB_Swivel; cd01576 994484010493 substrate binding site [chemical binding]; other site 994484010494 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 994484010495 substrate binding site [chemical binding]; other site 994484010496 ligand binding site [chemical binding]; other site 994484010497 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 994484010498 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484010499 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484010500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010501 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 994484010502 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 994484010503 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 994484010504 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 994484010505 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 994484010506 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 994484010507 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 994484010508 Protein of unknown function (DUF770); Region: DUF770; cl01402 994484010509 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 994484010510 Protein of unknown function (DUF877); Region: DUF877; pfam05943 994484010511 Protein of unknown function (DUF796); Region: DUF796; cl01226 994484010512 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 994484010513 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 994484010514 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 994484010515 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 994484010516 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 994484010517 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...; Region: AAA; cd00009 994484010518 Walker A motif; other site 994484010519 ATP binding site [chemical binding]; other site 994484010520 Walker B motif; other site 994484010521 arginine finger; other site 994484010522 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...; Region: AAA; cd00009 994484010523 Walker A motif; other site 994484010524 ATP binding site [chemical binding]; other site 994484010525 Walker B motif; other site 994484010526 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484010527 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484010528 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 994484010529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484010530 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 994484010531 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: ACAD10_11_like; cd05154 994484010532 putative active site [active] 994484010533 putative substrate binding site [chemical binding]; other site 994484010534 ATP binding site [chemical binding]; other site 994484010535 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484010536 classical (c) SDRs; Region: SDR_c; cd05233 994484010537 NAD(P) binding site [chemical binding]; other site 994484010538 active site 994484010539 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484010540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 994484010542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010543 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 994484010544 non-specific DNA binding site [nucleotide binding]; other site 994484010545 salt bridge; other site 994484010546 sequence-specific DNA binding site [nucleotide binding]; other site 994484010547 Cupin domain; Region: Cupin_2; cl09118 994484010548 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484010549 EamA-like transporter family; Region: EamA; cl01037 994484010550 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 994484010551 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 994484010552 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 994484010553 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 994484010554 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 994484010555 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 994484010556 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 994484010557 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 994484010558 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 994484010559 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 994484010560 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 994484010561 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484010562 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484010563 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 994484010564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010565 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484010566 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 994484010567 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 994484010568 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 994484010569 TM-ABC transporter signature motif; other site 994484010570 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 994484010571 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...; Region: ABC_Carb_Monos_I; cd03216 994484010572 Walker A/P-loop; other site 994484010573 ATP binding site [chemical binding]; other site 994484010574 Q-loop/lid; other site 994484010575 ABC transporter signature motif; other site 994484010576 Walker B; other site 994484010577 D-loop; other site 994484010578 H-loop/switch region; other site 994484010579 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 994484010580 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484010581 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 994484010582 putative ligand binding site [chemical binding]; other site 994484010583 putative oxidoreductase; Provisional; Region: PRK11579 994484010584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010585 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484010586 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484010587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010588 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484010589 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 994484010590 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484010591 PYR/PP interface [polypeptide binding]; other site 994484010592 dimer interface [polypeptide binding]; other site 994484010593 TPP binding site [chemical binding]; other site 994484010594 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484010595 TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 994484010596 TPP-binding site; other site 994484010597 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 994484010598 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 994484010599 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484010600 tetrameric interface [polypeptide binding]; other site 994484010601 NAD binding site [chemical binding]; other site 994484010602 catalytic residues [active] 994484010603 KduI/IolB family; Region: KduI; cl01508 994484010604 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484010605 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 994484010606 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 994484010607 substrate binding site [chemical binding]; other site 994484010608 ATP binding site [chemical binding]; other site 994484010609 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 994484010610 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484010611 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...; Region: SIS_RpiR; cd05013 994484010612 putative active site [active] 994484010613 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484010614 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484010615 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 994484010616 dimer interface [polypeptide binding]; other site 994484010617 N-terminal domain interface [polypeptide binding]; other site 994484010618 putative substrate binding pocket (H-site) [chemical binding]; other site 994484010619 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 994484010620 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484010621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010622 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 994484010623 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484010624 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 994484010625 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484010626 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 994484010627 active site 994484010628 phosphorylation site [posttranslational modification] 994484010629 intermolecular recognition site; other site 994484010630 dimerization interface [polypeptide binding]; other site 994484010631 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...; Region: trans_reg_C; cd00383 994484010632 DNA binding site [nucleotide binding] 994484010633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484010634 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484010635 dimerization interface [polypeptide binding]; other site 994484010636 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 trans-...; Region: HisKA; cd00082 994484010637 dimer interface [polypeptide binding]; other site 994484010638 phosphorylation site [posttranslational modification] 994484010639 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 994484010640 ATP binding site [chemical binding]; other site 994484010641 Mg2+ binding site [ion binding]; other site 994484010642 G-X-G motif; other site 994484010643 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 994484010644 sensory histidine kinase AtoS; Provisional; Region: PRK11360 994484010645 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 994484010646 PAS domain S-box; Region: sensory_box; TIGR00229 994484010647 PAS domain S-box; Region: sensory_box; TIGR00229 994484010648 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 994484010649 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...; Region: LuxR_C_like; cd06170 994484010650 DNA binding residues [nucleotide binding] 994484010651 dimerization interface [polypeptide binding]; other site 994484010652 allantoate amidohydrolase; Reviewed; Region: PRK12893 994484010653 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 994484010654 active site 994484010655 metal binding site [ion binding]; metal-binding site 994484010656 dimer interface [polypeptide binding]; other site 994484010657 Sodium:solute symporter family; Region: SSF; cl00456 994484010658 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484010659 phenylhydantoinase; Validated; Region: PRK08323 994484010660 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...; Region: D-HYD; cd01314 994484010661 tetramer interface [polypeptide binding]; other site 994484010662 active site 994484010663 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 994484010664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010665 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 994484010666 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 994484010667 homodimer interface [polypeptide binding]; other site 994484010668 active site 994484010669 FMN binding site [chemical binding]; other site 994484010670 substrate binding site [chemical binding]; other site 994484010671 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 alpha-; Region: HCP_like; cl14655 994484010672 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 994484010673 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484010674 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 994484010675 outer membrane porin, OprD family; Region: OprD; pfam03573 994484010676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010677 active site 994484010678 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 994484010679 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 994484010680 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 994484010681 DctM-like transporters; Region: DctM; pfam06808 994484010682 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; cl09110 994484010683 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 994484010684 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 994484010685 active site 994484010686 catalytic residues [active] 994484010687 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010688 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010689 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 994484010690 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 994484010691 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 994484010692 tetramer interface [polypeptide binding]; other site 994484010693 TPP-binding site [chemical binding]; other site 994484010694 heterodimer interface [polypeptide binding]; other site 994484010695 phosphorylation loop region [posttranslational modification] 994484010696 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 994484010697 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 994484010698 alpha subunit interface [polypeptide binding]; other site 994484010699 TPP binding site [chemical binding]; other site 994484010700 heterodimer interface [polypeptide binding]; other site 994484010701 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484010702 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 994484010703 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 994484010704 E3 interaction surface; other site 994484010705 lipoyl attachment site [posttranslational modification]; other site 994484010706 e3 binding domain; Region: E3_binding; pfam02817 994484010707 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 994484010708 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 994484010709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010710 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484010711 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 994484010712 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 alpha-...; Region: BCAT_beta_family; cd01557 994484010713 homodimer interface [polypeptide binding]; other site 994484010714 substrate-cofactor binding pocket; other site 994484010715 catalytic residue [active] 994484010716 EamA-like transporter family; Region: EamA; cl01037 994484010717 Cupin domain; Region: Cupin_2; cl09118 994484010718 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010720 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 994484010721 dimerization interface [polypeptide binding]; other site 994484010722 putative DNA binding site [nucleotide binding]; other site 994484010723 putative Zn2+ binding site [ion binding]; other site 994484010724 Cytochrome P450; Region: p450; cl12078 994484010725 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484010726 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 994484010727 active site 994484010728 Zn binding site [ion binding]; other site 994484010729 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 994484010730 A new structural DNA glycosylase; Region: AlkD_like; cl11434 994484010731 A new structural DNA glycosylase; Region: AlkD_like; cl11434 994484010732 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 994484010733 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 994484010734 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 994484010735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484010736 metal binding site [ion binding]; metal-binding site 994484010737 active site 994484010738 I-site; other site 994484010739 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 994484010740 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 994484010741 Isochorismatase family; Region: Isochorismatase; pfam00857 994484010742 catalytic triad [active] 994484010743 metal binding site [ion binding]; metal-binding site 994484010744 conserved cis-peptide bond; other site 994484010745 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 994484010746 sensor protein RstB; Provisional; Region: PRK10604 994484010747 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484010748 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 trans-...; Region: HisKA; cl00080 994484010749 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 994484010750 ATP binding site [chemical binding]; other site 994484010751 Mg2+ binding site [ion binding]; other site 994484010752 G-X-G motif; other site 994484010753 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 994484010754 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 994484010755 active site 994484010756 phosphorylation site [posttranslational modification] 994484010757 intermolecular recognition site; other site 994484010758 dimerization interface [polypeptide binding]; other site 994484010759 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...; Region: trans_reg_C; cd00383 994484010760 DNA binding site [nucleotide binding] 994484010761 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 994484010762 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484010763 Autotransporter beta-domain; Region: Autotransporter; cl02365 994484010764 aspartate aminotransferase; Provisional; Region: PRK08361 994484010765 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 994484010766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010767 homodimer interface [polypeptide binding]; other site 994484010768 catalytic residue [active] 994484010769 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484010770 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484010771 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010772 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484010773 Glycerate kinase family; Region: Gly_kinase; cl00841 994484010774 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 994484010775 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 994484010776 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484010777 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 994484010778 putative substrate translocation pore; other site 994484010779 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484010780 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...; Region: Aldo_ket_red; cd06660 994484010781 active site 994484010782 catalytic tetrad [active] 994484010783 Predicted permeases [General function prediction only]; Region: RarD; COG2962 994484010784 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 994484010785 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 994484010786 dimer interface [polypeptide binding]; other site 994484010787 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 994484010788 active site 994484010789 Fe binding site [ion binding]; other site 994484010790 EamA-like transporter family; Region: EamA; cl01037 994484010791 EamA-like transporter family; Region: EamA; cl01037 994484010792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010793 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 994484010794 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 994484010795 dimerization interface [polypeptide binding]; other site 994484010796 phage resistance protein; Provisional; Region: PRK10551 994484010797 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 994484010798 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 994484010799 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 994484010800 dimer interface [polypeptide binding]; other site 994484010801 active site 994484010802 metal binding site [ion binding]; metal-binding site 994484010803 glutathione binding site [chemical binding]; other site 994484010804 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 994484010805 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the...; Region: AhpF_NTD_N; cd02974 994484010806 catalytic residue [active] 994484010807 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 994484010808 catalytic residues [active] 994484010809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010810 peroxiredoxin; Region: AhpC; TIGR03137 994484010811 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 994484010812 dimer interface [polypeptide binding]; other site 994484010813 decamer (pentamer of dimers) interface [polypeptide binding]; other site 994484010814 catalytic triad [active] 994484010815 peroxidatic and resolving cysteines [active] 994484010816 glutathione reductase; Validated; Region: PRK06116 994484010817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010818 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484010819 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 994484010820 active site 994484010821 tetramer interface [polypeptide binding]; other site 994484010822 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 994484010823 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 994484010824 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 994484010825 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 994484010826 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 994484010827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010828 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 994484010829 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 994484010830 DNA binding site [nucleotide binding] 994484010831 active site 994484010832 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 994484010833 Nitronate monooxygenase; Region: NMO; pfam03060 994484010834 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...; Region: NPD_like; cd04730 994484010835 FMN binding site [chemical binding]; other site 994484010836 substrate binding site [chemical binding]; other site 994484010837 putative catalytic residue [active] 994484010838 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 994484010839 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484010840 dimer interface [polypeptide binding]; other site 994484010841 conserved gate region; other site 994484010842 putative PBP binding loops; other site 994484010843 ABC-ATPase subunit interface; other site 994484010844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484010845 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 994484010846 Walker A/P-loop; other site 994484010847 ATP binding site [chemical binding]; other site 994484010848 Q-loop/lid; other site 994484010849 ABC transporter signature motif; other site 994484010850 Walker B; other site 994484010851 D-loop; other site 994484010852 H-loop/switch region; other site 994484010853 TOBE domain; Region: TOBE_2; cl01440 994484010854 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 994484010855 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes...; Region: Topo_IB_C; cd00659 994484010856 DNA binding site [nucleotide binding] 994484010857 active site 994484010858 Int/Topo IB signature motif; other site 994484010859 catalytic residues [active] 994484010860 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; cl14780 994484010861 active site 994484010862 Low molecular weight phosphatase family; Region: LMWPc; cd00115 994484010863 Active site [active] 994484010864 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 994484010865 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 994484010866 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 994484010867 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; cl11391 994484010868 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 994484010869 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 994484010870 MatE; Region: MatE; cl10513 994484010871 MatE; Region: MatE; cl10513 994484010872 Response regulator receiver domain; Region: Response_reg; pfam00072 994484010873 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 994484010874 active site 994484010875 phosphorylation site [posttranslational modification] 994484010876 intermolecular recognition site; other site 994484010877 dimerization interface [polypeptide binding]; other site 994484010878 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 994484010879 anti sigma factor interaction site; other site 994484010880 regulatory phosphorylation site [posttranslational modification]; other site 994484010881 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484010882 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 994484010883 putative binding surface; other site 994484010884 active site 994484010885 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484010886 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 994484010887 ATP binding site [chemical binding]; other site 994484010888 Mg2+ binding site [ion binding]; other site 994484010889 G-X-G motif; other site 994484010890 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 994484010891 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484010892 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484010893 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010894 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484010895 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 994484010896 putative CheA interaction surface; other site 994484010897 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484010898 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 994484010899 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; cl12011 994484010900 CheD chemotactic sensory transduction; Region: CheD; cl00810 994484010901 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 994484010902 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 994484010903 active site 994484010904 phosphorylation site [posttranslational modification] 994484010905 intermolecular recognition site; other site 994484010906 dimerization interface [polypeptide binding]; other site 994484010907 CheB methylesterase; Region: CheB_methylest; pfam01339 994484010908 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 994484010909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484010910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484010911 dimer interface [polypeptide binding]; other site 994484010912 conserved gate region; other site 994484010913 putative PBP binding loops; other site 994484010914 ABC-ATPase subunit interface; other site 994484010915 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484010916 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 994484010917 Walker A/P-loop; other site 994484010918 ATP binding site [chemical binding]; other site 994484010919 Q-loop/lid; other site 994484010920 ABC transporter signature motif; other site 994484010921 Walker B; other site 994484010922 D-loop; other site 994484010923 H-loop/switch region; other site 994484010924 Uncharacterized conserved protein [Function unknown]; Region: COG4754 994484010925 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 994484010926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484010927 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 trans-...; Region: HisKA; cl00080 994484010928 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 994484010929 ATP binding site [chemical binding]; other site 994484010930 Mg2+ binding site [ion binding]; other site 994484010931 G-X-G motif; other site 994484010932 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 994484010933 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 994484010934 active site 994484010935 phosphorylation site [posttranslational modification] 994484010936 intermolecular recognition site; other site 994484010937 dimerization interface [polypeptide binding]; other site 994484010938 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...; Region: LuxR_C_like; cd06170 994484010939 DNA binding residues [nucleotide binding] 994484010940 dimerization interface [polypeptide binding]; other site 994484010941 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 994484010942 EamA-like transporter family; Region: EamA; cl01037 994484010943 EamA-like transporter family; Region: EamA; cl01037 994484010944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010946 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 994484010947 dimerization interface [polypeptide binding]; other site 994484010948 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 994484010949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484010950 ABC transporter signature motif; other site 994484010951 Walker B; other site 994484010952 D-loop; other site 994484010953 H-loop/switch region; other site 994484010954 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484010955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010956 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 994484010957 dimerization interface [polypeptide binding]; other site 994484010958 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484010959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010960 NAD(P) binding site [chemical binding]; other site 994484010961 active site 994484010962 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 994484010963 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...; Region: LuxR_C_like; cd06170 994484010964 DNA binding residues [nucleotide binding] 994484010965 dimerization interface [polypeptide binding]; other site 994484010966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010968 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 994484010969 putative effector binding pocket; other site 994484010970 putative dimerization interface [polypeptide binding]; other site 994484010971 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 994484010972 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 994484010973 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...; Region: LuxR_C_like; cd06170 994484010974 DNA binding residues [nucleotide binding] 994484010975 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 994484010976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484010977 choline dehydrogenase; Validated; Region: PRK02106 994484010978 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484010979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484010980 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484010981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010982 oxidoreductase; Provisional; Region: PRK12742 994484010983 classical (c) SDRs; Region: SDR_c; cd05233 994484010984 NAD(P) binding site [chemical binding]; other site 994484010985 active site 994484010986 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484010987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484010988 classical (c) SDRs; Region: SDR_c; cd05233 994484010989 NAD(P) binding site [chemical binding]; other site 994484010990 active site 994484010991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 994484010992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010993 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484010994 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 994484010995 dimerization interface [polypeptide binding]; other site 994484010996 Protein of unknown function, DUF485; Region: DUF485; cl01231 994484010997 Sodium:solute symporter family; Region: SSF; cl00456 994484010998 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484010999 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 994484011000 putative active site [active] 994484011001 catalytic triad [active] 994484011002 putative dimer interface [polypeptide binding]; other site 994484011003 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484011004 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 994484011005 motif II; other site 994484011006 transcriptional regulator; Provisional; Region: PRK10632 994484011007 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_10; cd08480 994484011008 putative effector binding pocket; other site 994484011009 putative dimerization interface [polypeptide binding]; other site 994484011010 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 994484011011 putative substrate translocation pore; other site 994484011012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011014 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 994484011015 dimerization interface [polypeptide binding]; other site 994484011016 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484011017 Cupin domain; Region: Cupin_2; cl09118 994484011018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011020 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 994484011021 dimerization interface [polypeptide binding]; other site 994484011022 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 994484011023 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 994484011024 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 994484011025 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 994484011026 N-terminal plug; other site 994484011027 ligand-binding site [chemical binding]; other site 994484011028 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 994484011029 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 994484011030 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...; Region: 4HBT; cd00586 994484011031 active site 994484011032 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484011033 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...; Region: PBPb; cl15306 994484011034 substrate binding pocket [chemical binding]; other site 994484011035 membrane-bound complex binding site; other site 994484011036 hinge residues; other site 994484011037 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 994484011038 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484011039 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 994484011040 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484011041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011042 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 994484011043 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 994484011044 inhibitor-cofactor binding pocket; inhibition site 994484011045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484011046 catalytic residue [active] 994484011047 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 994484011048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011049 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484011050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484011051 Coenzyme A binding pocket [chemical binding]; other site 994484011052 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 994484011053 Cupin domain; Region: Cupin_2; cl09118 994484011054 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 994484011055 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484011056 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484011057 tetramerization interface [polypeptide binding]; other site 994484011058 NAD(P) binding site [chemical binding]; other site 994484011059 catalytic residues [active] 994484011060 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484011061 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 994484011062 metal binding site [ion binding]; metal-binding site 994484011063 putative dimer interface [polypeptide binding]; other site 994484011064 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484011065 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484011066 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484011067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011068 putative oxidoreductase; Provisional; Region: PRK08275 994484011069 A subunit; Region: glycerol3P_GlpA; TIGR03377 994484011070 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 994484011071 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 994484011072 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 994484011073 Walker A/P-loop; other site 994484011074 ATP binding site [chemical binding]; other site 994484011075 Q-loop/lid; other site 994484011076 ABC transporter signature motif; other site 994484011077 Walker B; other site 994484011078 D-loop; other site 994484011079 H-loop/switch region; other site 994484011080 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 994484011081 Walker A/P-loop; other site 994484011082 ATP binding site [chemical binding]; other site 994484011083 Q-loop/lid; other site 994484011084 ABC transporter signature motif; other site 994484011085 Walker B; other site 994484011086 D-loop; other site 994484011087 H-loop/switch region; other site 994484011088 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484011089 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484011090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011091 dimer interface [polypeptide binding]; other site 994484011092 conserved gate region; other site 994484011093 ABC-ATPase subunit interface; other site 994484011094 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484011095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011096 dimer interface [polypeptide binding]; other site 994484011097 conserved gate region; other site 994484011098 putative PBP binding loops; other site 994484011099 ABC-ATPase subunit interface; other site 994484011100 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484011101 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 994484011102 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484011103 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484011104 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484011105 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; cl11391 994484011106 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011107 transcriptional activator TtdR; Provisional; Region: PRK09801 994484011108 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 994484011109 dimerization interface [polypeptide binding]; other site 994484011110 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 994484011111 active site 994484011112 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484011113 dimer interface [polypeptide binding]; other site 994484011114 substrate binding site [chemical binding]; other site 994484011115 catalytic residue [active] 994484011116 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 994484011117 homotrimer interaction site [polypeptide binding]; other site 994484011118 putative active site [active] 994484011119 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484011120 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484011121 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 994484011122 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484011123 NAD binding site [chemical binding]; other site 994484011124 catalytic residues [active] 994484011125 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 994484011126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011128 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 994484011129 putative effector binding pocket; other site 994484011130 putative dimerization interface [polypeptide binding]; other site 994484011131 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; cl10015 994484011132 homotrimer interaction site [polypeptide binding]; other site 994484011133 putative active site [active] 994484011134 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 994484011135 dimer interface [polypeptide binding]; other site 994484011136 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 994484011137 VacJ like lipoprotein; Region: VacJ; cl01073 994484011138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484011139 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 994484011140 active site 994484011141 phosphorylation site [posttranslational modification] 994484011142 intermolecular recognition site; other site 994484011143 dimerization interface [polypeptide binding]; other site 994484011144 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...; Region: trans_reg_C; cd00383 994484011145 DNA binding site [nucleotide binding] 994484011146 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484011147 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 trans-...; Region: HisKA; cl00080 994484011148 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 994484011149 ATP binding site [chemical binding]; other site 994484011150 Mg2+ binding site [ion binding]; other site 994484011151 G-X-G motif; other site 994484011152 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484011153 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 994484011154 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484011155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011156 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484011157 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484011158 conserved cys residue [active] 994484011159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011160 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484011161 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...; Region: Aldo_ket_red; cd06660 994484011162 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484011163 active site 994484011164 catalytic tetrad [active] 994484011165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011167 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 994484011168 putative effector binding pocket; other site 994484011169 putative dimerization interface [polypeptide binding]; other site 994484011170 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 994484011171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011172 NmrA-like family; Region: NmrA; pfam05368 994484011173 NAD(P) binding site [chemical binding]; other site 994484011174 active site 994484011175 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 994484011176 homotrimer interaction site [polypeptide binding]; other site 994484011177 putative active site [active] 994484011178 glycolate transporter; Provisional; Region: PRK09695 994484011179 L-lactate permease; Region: Lactate_perm; cl00701 994484011180 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484011181 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 994484011182 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 994484011183 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484011184 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 D-arabino-6-...; Region: AP2Ec; cl12060 994484011185 Metal-binding active site; metal-binding site 994484011186 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 994484011187 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484011188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011189 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 994484011190 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484011191 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484011192 DNA binding site [nucleotide binding] 994484011193 domain linker motif; other site 994484011194 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484011195 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 994484011196 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484011197 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; cl09110 994484011198 DctM-like transporters; Region: DctM; pfam06808 994484011199 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 994484011200 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 994484011201 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 trans-...; Region: HisKA; cd00082 994484011202 dimer interface [polypeptide binding]; other site 994484011203 phosphorylation site [posttranslational modification] 994484011204 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 994484011205 ATP binding site [chemical binding]; other site 994484011206 Mg2+ binding site [ion binding]; other site 994484011207 G-X-G motif; other site 994484011208 EamA-like transporter family; Region: EamA; cl01037 994484011209 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 994484011210 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 994484011211 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 994484011212 catalytic triad [active] 994484011213 conserved cis-peptide bond; other site 994484011214 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 994484011215 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 994484011216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484011217 Coenzyme A binding pocket [chemical binding]; other site 994484011218 DsrE/DsrF-like family; Region: DrsE; cl00672 994484011219 DsrE/DsrF-like family; Region: DrsE; cl00672 994484011220 DsrE/DsrF-like family; Region: DrsE; cl00672 994484011221 DsrC like protein; Region: DsrC; cl01101 994484011222 hypothetical protein; Validated; Region: PRK09071 994484011223 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 994484011224 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 994484011225 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 994484011226 putative dimer interface [polypeptide binding]; other site 994484011227 N-terminal domain interface [polypeptide binding]; other site 994484011228 putative substrate binding pocket (H-site) [chemical binding]; other site 994484011229 siroheme synthase; Provisional; Region: cysG; PRK10637 994484011230 precorrin-2 dehydrogenase; Validated; Region: PRK06719 994484011231 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 994484011232 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484011233 seryl-tRNA synthetase; Provisional; Region: PRK05431 994484011234 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 994484011235 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 994484011236 dimer interface [polypeptide binding]; other site 994484011237 active site 994484011238 motif 1; other site 994484011239 motif 2; other site 994484011240 motif 3; other site 994484011241 CrcB-like protein; Region: CRCB; cl09114 994484011242 recombination factor protein RarA; Reviewed; Region: PRK13342 994484011243 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...; Region: AAA; cd00009 994484011244 Walker A motif; other site 994484011245 ATP binding site [chemical binding]; other site 994484011246 Walker B motif; other site 994484011247 arginine finger; other site 994484011248 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 994484011249 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 994484011250 DNA translocase FtsK; Provisional; Region: PRK10263 994484011251 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484011252 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 994484011253 thioredoxin reductase; Provisional; Region: PRK10262 994484011254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011255 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 994484011256 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 994484011257 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 994484011258 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 994484011259 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 994484011260 rRNA binding site [nucleotide binding]; other site 994484011261 predicted 30S ribosome binding site; other site 994484011262 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 994484011263 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...; Region: AAA; cd00009 994484011264 Walker A motif; other site 994484011265 ATP binding site [chemical binding]; other site 994484011266 Walker B motif; other site 994484011267 arginine finger; other site 994484011268 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...; Region: AAA; cd00009 994484011269 Walker A motif; other site 994484011270 ATP binding site [chemical binding]; other site 994484011271 Walker B motif; other site 994484011272 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 994484011273 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 994484011274 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 994484011275 DNA-binding site [nucleotide binding]; DNA binding site 994484011276 RNA-binding motif; other site 994484011277 isocitrate dehydrogenase; Validated; Region: PRK07362 994484011278 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 994484011279 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 994484011280 isocitrate dehydrogenase, NADP-dependent, monomeric type; Region: monomer_idh; TIGR00178 994484011281 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X...; Region: Nudix_Hydrolase_2; cd03675 994484011282 nudix motif; other site 994484011283 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 994484011284 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 994484011285 Protein of unknown function (DUF489); Region: DUF489; cl01097 994484011286 adenylosuccinate lyase; Provisional; Region: PRK09285 994484011287 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 994484011288 tetramer interface [polypeptide binding]; other site 994484011289 active site 994484011290 Uncharacterized conserved protein [Function unknown]; Region: COG2850 994484011291 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484011292 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484011293 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 994484011294 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 994484011295 tetramer interface [polypeptide binding]; other site 994484011296 active site 994484011297 Mg2+/Mn2+ binding site [ion binding]; other site 994484011298 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484011299 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484011300 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484011301 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 994484011302 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 994484011303 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 994484011304 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 994484011305 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 994484011306 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 994484011307 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...; Region: TRX_Fd_NuoE; cd03064 994484011308 putative dimer interface [polypeptide binding]; other site 994484011309 [2Fe-2S] cluster binding site [ion binding]; other site 994484011310 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 994484011311 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 994484011312 SLBB domain; Region: SLBB; pfam10531 994484011313 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 994484011314 NADH dehydrogenase subunit G; Validated; Region: PRK08166 994484011315 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 994484011316 catalytic loop [active] 994484011317 iron binding site [ion binding]; other site 994484011318 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 994484011319 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 994484011320 [4Fe-4S] binding site [ion binding]; other site 994484011321 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 994484011322 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 994484011323 NADH dehydrogenase; Region: NADHdh; cl00469 994484011324 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 994484011325 4Fe-4S binding domain; Region: Fer4; cl02805 994484011326 4Fe-4S binding domain; Region: Fer4; cl02805 994484011327 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 994484011328 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 994484011329 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 994484011330 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 994484011331 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 994484011332 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 994484011333 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 994484011334 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 994484011335 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 994484011336 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484011337 conserved cys residue [active] 994484011338 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 994484011339 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484011340 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 994484011341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011342 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484011343 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 994484011344 putative effector binding pocket; other site 994484011345 dimerization interface [polypeptide binding]; other site 994484011346 Isochorismatase family; Region: Isochorismatase; pfam00857 994484011347 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 994484011348 catalytic triad [active] 994484011349 dimer interface [polypeptide binding]; other site 994484011350 conserved cis-peptide bond; other site 994484011351 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 994484011352 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 994484011353 active site 994484011354 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484011355 DoxX; Region: DoxX; cl00976 994484011356 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011358 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 994484011359 putative substrate binding pocket [chemical binding]; other site 994484011360 putative dimerization interface [polypeptide binding]; other site 994484011361 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484011362 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 994484011363 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 994484011364 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...; Region: trans_reg_C; cd00383 994484011365 DNA binding site [nucleotide binding] 994484011366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484011367 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...; Region: trans_reg_C; cd00383 994484011368 DNA binding site [nucleotide binding] 994484011369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484011370 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484011371 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484011372 conserved cys residue [active] 994484011373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011375 Pirin-related protein [General function prediction only]; Region: COG1741 994484011376 Cupin domain; Region: Cupin_2; cl09118 994484011377 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484011378 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484011379 conserved cys residue [active] 994484011380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011381 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484011382 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 994484011383 NAD(P) binding site [chemical binding]; other site 994484011384 catalytic residues [active] 994484011385 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484011386 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484011387 inhibitor site; inhibition site 994484011388 active site 994484011389 dimer interface [polypeptide binding]; other site 994484011390 catalytic residue [active] 994484011391 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484011392 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484011393 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484011394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484011395 DNA-binding site [nucleotide binding]; DNA binding site 994484011396 FCD domain; Region: FCD; cl11656 994484011397 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484011398 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484011399 conserved cys residue [active] 994484011400 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 994484011401 Proline racemase; Region: Pro_racemase; pfam05544 994484011402 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011403 dimer interface [polypeptide binding]; other site 994484011404 conserved gate region; other site 994484011405 ABC-ATPase subunit interface; other site 994484011406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011407 dimer interface [polypeptide binding]; other site 994484011408 conserved gate region; other site 994484011409 putative PBP binding loops; other site 994484011410 ABC-ATPase subunit interface; other site 994484011411 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 994484011412 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484011413 Walker A/P-loop; other site 994484011414 ATP binding site [chemical binding]; other site 994484011415 Q-loop/lid; other site 994484011416 ABC transporter signature motif; other site 994484011417 Walker B; other site 994484011418 D-loop; other site 994484011419 H-loop/switch region; other site 994484011420 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484011421 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484011422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484011423 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 994484011424 DNA-binding site [nucleotide binding]; DNA binding site 994484011425 FCD domain; Region: FCD; cl11656 994484011426 Cache domain; Region: Cache_1; pfam02743 994484011427 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484011428 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484011429 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484011430 EamA-like transporter family; Region: EamA; cl01037 994484011431 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 994484011432 potential frameshift: common BLAST hit: gi|70730909|ref|YP_260650.1| malate/L-lactate dehydrogenase family protein 994484011433 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 994484011434 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 994484011435 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484011436 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484011437 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 994484011438 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 994484011439 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 994484011440 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 994484011441 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 994484011442 Ligand binding site [chemical binding]; other site 994484011443 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 994484011444 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 994484011445 putative active site [active] 994484011446 putative FMN binding site [chemical binding]; other site 994484011447 putative substrate binding site [chemical binding]; other site 994484011448 putative catalytic residue [active] 994484011449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011450 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 994484011451 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 994484011452 substrate binding site [chemical binding]; other site 994484011453 catalytic Zn binding site [ion binding]; other site 994484011454 NAD binding site [chemical binding]; other site 994484011455 structural Zn binding site [ion binding]; other site 994484011456 dimer interface [polypeptide binding]; other site 994484011457 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 994484011458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011459 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 994484011460 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484011461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484011462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011463 dimer interface [polypeptide binding]; other site 994484011464 conserved gate region; other site 994484011465 putative PBP binding loops; other site 994484011466 ABC-ATPase subunit interface; other site 994484011467 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 994484011468 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484011469 Walker A/P-loop; other site 994484011470 ATP binding site [chemical binding]; other site 994484011471 Q-loop/lid; other site 994484011472 ABC transporter signature motif; other site 994484011473 Walker B; other site 994484011474 D-loop; other site 994484011475 H-loop/switch region; other site 994484011476 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 994484011477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011478 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 994484011479 dimerization interface [polypeptide binding]; other site 994484011480 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484011481 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 994484011482 [2Fe-2S] cluster binding site [ion binding]; other site 994484011483 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 994484011484 putative alpha subunit interface [polypeptide binding]; other site 994484011485 putative active site [active] 994484011486 putative substrate binding site [chemical binding]; other site 994484011487 Fe binding site [ion binding]; other site 994484011488 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484011489 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 994484011490 FAD binding pocket [chemical binding]; other site 994484011491 FAD binding motif [chemical binding]; other site 994484011492 phosphate binding motif [ion binding]; other site 994484011493 beta-alpha-beta structure motif; other site 994484011494 NAD binding pocket [chemical binding]; other site 994484011495 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 994484011496 catalytic loop [active] 994484011497 iron binding site [ion binding]; other site 994484011498 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484011499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011500 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 994484011501 dimerization interface [polypeptide binding]; other site 994484011502 substrate binding pocket [chemical binding]; other site 994484011503 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 994484011504 CoenzymeA binding site [chemical binding]; other site 994484011505 subunit interaction site [polypeptide binding]; other site 994484011506 PHB binding site; other site 994484011507 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484011508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484011509 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 994484011510 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 994484011511 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 994484011512 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 994484011513 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484011514 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484011515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011516 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484011517 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 994484011518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011520 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 994484011521 active site 994484011522 metal binding site [ion binding]; metal-binding site 994484011523 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 994484011524 active site 994484011525 metal binding site [ion binding]; metal-binding site 994484011526 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484011527 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484011528 NAD(P) binding site [chemical binding]; other site 994484011529 catalytic residues [active] 994484011530 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 994484011531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011532 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 994484011533 Outer membrane efflux protein; Region: OEP; pfam02321 994484011534 Outer membrane efflux protein; Region: OEP; pfam02321 994484011535 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484011536 Protein export membrane protein; Region: SecD_SecF; cl14618 994484011537 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 994484011538 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 994484011539 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484011540 dimerization interface [polypeptide binding]; other site 994484011541 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 trans-...; Region: HisKA; cd00082 994484011542 dimer interface [polypeptide binding]; other site 994484011543 phosphorylation site [posttranslational modification] 994484011544 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 994484011545 ATP binding site [chemical binding]; other site 994484011546 Mg2+ binding site [ion binding]; other site 994484011547 G-X-G motif; other site 994484011548 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 994484011549 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 994484011550 active site 994484011551 phosphorylation site [posttranslational modification] 994484011552 intermolecular recognition site; other site 994484011553 dimerization interface [polypeptide binding]; other site 994484011554 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...; Region: trans_reg_C; cd00383 994484011555 DNA binding site [nucleotide binding] 994484011556 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484011557 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 trans-...; Region: HisKA; cd00082 994484011558 dimer interface [polypeptide binding]; other site 994484011559 phosphorylation site [posttranslational modification] 994484011560 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 994484011561 ATP binding site [chemical binding]; other site 994484011562 Mg2+ binding site [ion binding]; other site 994484011563 G-X-G motif; other site 994484011564 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 994484011565 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 994484011566 active site 994484011567 phosphorylation site [posttranslational modification] 994484011568 intermolecular recognition site; other site 994484011569 dimerization interface [polypeptide binding]; other site 994484011570 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...; Region: trans_reg_C; cd00383 994484011571 DNA binding site [nucleotide binding] 994484011572 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 994484011573 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484011574 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484011575 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484011576 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484011577 Surface antigen; Region: Bac_surface_Ag; cl03097 994484011578 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 994484011579 active site 994484011580 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 994484011581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011582 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: GT1_like_1; cd04950 994484011583 putative homodimer interface [polypeptide binding]; other site 994484011584 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484011585 Probable Catalytic site [active] 994484011586 metal binding site [ion binding]; metal-binding site 994484011587 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 994484011588 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 994484011589 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...; Region: ABC_KpsT_Wzt; cd03220 994484011590 Walker A/P-loop; other site 994484011591 ATP binding site [chemical binding]; other site 994484011592 Q-loop/lid; other site 994484011593 ABC transporter signature motif; other site 994484011594 Walker B; other site 994484011595 D-loop; other site 994484011596 H-loop/switch region; other site 994484011597 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 994484011598 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484011599 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 994484011600 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: GT1_like_1; cd04950 994484011601 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484011602 putative homodimer interface [polypeptide binding]; other site 994484011603 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484011604 Probable Catalytic site [active] 994484011605 metal binding site [ion binding]; metal-binding site 994484011606 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 994484011607 Ligand binding site [chemical binding]; other site 994484011608 Putative Catalytic site [active] 994484011609 DXD motif; other site 994484011610 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; cl12011 994484011611 GtrA-like protein; Region: GtrA; cl00971 994484011612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011613 active site 994484011614 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 994484011615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011616 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484011617 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 994484011618 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 994484011619 active site 994484011620 homodimer interface [polypeptide binding]; other site 994484011621 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: GT1_like_1; cd04950 994484011622 putative homodimer interface [polypeptide binding]; other site 994484011623 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 994484011624 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484011625 putative NAD(P) binding site [chemical binding]; other site 994484011626 catalytic Zn binding site [ion binding]; other site 994484011627 structural Zn binding site [ion binding]; other site 994484011628 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 994484011629 Predicted permease; Region: DUF318; cl00487 994484011630 Predicted permease; Region: DUF318; cl00487 994484011631 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484011632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484011633 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 994484011634 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 994484011635 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484011636 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 994484011637 dimerization interface [polypeptide binding]; other site 994484011638 putative DNA binding site [nucleotide binding]; other site 994484011639 putative Zn2+ binding site [ion binding]; other site 994484011640 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 994484011641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011642 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 994484011643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011644 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 994484011645 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484011646 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 994484011647 conserved cys residue [active] 994484011648 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...; Region: AAA; cd00009 994484011649 Walker A motif; other site 994484011650 ATP binding site [chemical binding]; other site 994484011651 Walker B motif; other site 994484011652 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 994484011653 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 994484011654 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484011655 multimer interface [polypeptide binding]; other site 994484011656 active site 994484011657 catalytic triad [active] 994484011658 dimer interface [polypeptide binding]; other site 994484011659 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 994484011660 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 994484011661 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 994484011662 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 994484011663 Walker A/P-loop; other site 994484011664 ATP binding site [chemical binding]; other site 994484011665 Q-loop/lid; other site 994484011666 ABC transporter signature motif; other site 994484011667 Walker B; other site 994484011668 D-loop; other site 994484011669 H-loop/switch region; other site 994484011670 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 994484011671 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 994484011672 Walker A/P-loop; other site 994484011673 ATP binding site [chemical binding]; other site 994484011674 Q-loop/lid; other site 994484011675 ABC transporter signature motif; other site 994484011676 Walker B; other site 994484011677 D-loop; other site 994484011678 H-loop/switch region; other site 994484011679 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 994484011680 TM-ABC transporter signature motif; other site 994484011681 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 994484011682 TM-ABC transporter signature motif; other site 994484011683 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484011684 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 994484011685 putative ligand binding site [chemical binding]; other site 994484011686 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484011687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484011688 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 trans-...; Region: HisKA; cd00082 994484011689 dimer interface [polypeptide binding]; other site 994484011690 phosphorylation site [posttranslational modification] 994484011691 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 994484011692 ATP binding site [chemical binding]; other site 994484011693 Mg2+ binding site [ion binding]; other site 994484011694 G-X-G motif; other site 994484011695 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 994484011696 active site 994484011697 phosphorylation site [posttranslational modification] 994484011698 intermolecular recognition site; other site 994484011699 dimerization interface [polypeptide binding]; other site 994484011700 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484011701 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 994484011702 active site 994484011703 phosphorylation site [posttranslational modification] 994484011704 intermolecular recognition site; other site 994484011705 dimerization interface [polypeptide binding]; other site 994484011706 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...; Region: LuxR_C_like; cd06170 994484011707 DNA binding residues [nucleotide binding] 994484011708 dimerization interface [polypeptide binding]; other site 994484011709 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 994484011710 DNA binding residues [nucleotide binding] 994484011711 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 higher-...; Region: HU_IHF; cd00591 994484011712 IHF dimer interface [polypeptide binding]; other site 994484011713 IHF - DNA interface [nucleotide binding]; other site 994484011714 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 994484011715 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 994484011716 putative tRNA-binding site [nucleotide binding]; other site 994484011717 B3/4 domain; Region: B3_4; cl11458 994484011718 tRNA synthetase B5 domain; Region: B5; cl08394 994484011719 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 994484011720 dimer interface [polypeptide binding]; other site 994484011721 motif 1; other site 994484011722 motif 3; other site 994484011723 motif 2; other site 994484011724 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 994484011725 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 994484011726 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 994484011727 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 994484011728 dimer interface [polypeptide binding]; other site 994484011729 motif 1; other site 994484011730 active site 994484011731 motif 2; other site 994484011732 motif 3; other site 994484011733 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 994484011734 23S rRNA binding site [nucleotide binding]; other site 994484011735 L21 binding site [polypeptide binding]; other site 994484011736 L13 binding site [polypeptide binding]; other site 994484011737 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 994484011738 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 994484011739 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 994484011740 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 994484011741 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 994484011742 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...; Region: TGS_ThrRS_N; cd01667 994484011743 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 994484011744 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 994484011745 active site 994484011746 dimer interface [polypeptide binding]; other site 994484011747 motif 1; other site 994484011748 motif 2; other site 994484011749 motif 3; other site 994484011750 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 994484011751 anticodon binding site; other site 994484011752 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 994484011753 DNA-binding site [nucleotide binding]; DNA binding site 994484011754 RNA-binding motif; other site 994484011755 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 994484011756 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 994484011757 active site 994484011758 tetramer interface [polypeptide binding]; other site 994484011759 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 994484011760 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 994484011761 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...; Region: ribokinase; cd01174 994484011762 substrate binding site [chemical binding]; other site 994484011763 dimer interface [polypeptide binding]; other site 994484011764 ATP binding site [chemical binding]; other site 994484011765 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484011766 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484011767 DNA binding site [nucleotide binding] 994484011768 domain linker motif; other site 994484011769 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484011770 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 994484011771 TM-ABC transporter signature motif; other site 994484011772 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 994484011773 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...; Region: ABC_Carb_Monos_I; cd03216 994484011774 Walker A/P-loop; other site 994484011775 ATP binding site [chemical binding]; other site 994484011776 Q-loop/lid; other site 994484011777 ABC transporter signature motif; other site 994484011778 Walker B; other site 994484011779 D-loop; other site 994484011780 H-loop/switch region; other site 994484011781 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 994484011782 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 994484011783 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 994484011784 ligand binding site [chemical binding]; other site 994484011785 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 994484011786 Endonuclease I; Region: Endonuclease_1; cl01003 994484011787 DNA-specific endonuclease I; Provisional; Region: PRK15137 994484011788 Global regulator protein family; Region: CsrA; cl00670 994484011789 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 994484011790 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 994484011791 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 994484011792 active site 994484011793 HIGH motif; other site 994484011794 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 994484011795 KMSKS motif; other site 994484011796 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 994484011797 tRNA binding surface [nucleotide binding]; other site 994484011798 anticodon binding site; other site 994484011799 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 994484011800 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484011801 active site 994484011802 HIGH motif; other site 994484011803 nucleotide binding site [chemical binding]; other site 994484011804 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 994484011805 KMSKS motif; other site 994484011806 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 994484011807 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 994484011808 substrate binding site [chemical binding]; other site 994484011809 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484011810 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 994484011811 putative active site [active] 994484011812 putative metal binding site [ion binding]; other site 994484011813 NodT family; Region: outer_NodT; TIGR01845 994484011814 Outer membrane efflux protein; Region: OEP; pfam02321 994484011815 Outer membrane efflux protein; Region: OEP; pfam02321 994484011816 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484011817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 994484011819 Family of unknown function (DUF490); Region: DUF490; pfam04357 994484011820 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 994484011821 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484011822 Surface antigen; Region: Bac_surface_Ag; cl03097 994484011823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484011824 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 994484011825 putative phosphate binding site [ion binding]; other site 994484011826 putative catalytic site [active] 994484011827 active site 994484011828 metal binding site A [ion binding]; metal-binding site 994484011829 DNA binding site [nucleotide binding] 994484011830 putative AP binding site [nucleotide binding]; other site 994484011831 putative metal binding site B [ion binding]; other site 994484011832 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 994484011833 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 994484011834 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484011835 transcriptional regulator; Provisional; Region: PRK10632 994484011836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011837 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 994484011838 putative effector binding pocket; other site 994484011839 dimerization interface [polypeptide binding]; other site 994484011840 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 994484011841 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484011842 ligand binding site [chemical binding]; other site 994484011843 hypothetical protein; Provisional; Region: PRK07338 994484011844 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 994484011845 metal binding site [ion binding]; metal-binding site 994484011846 dimer interface [polypeptide binding]; other site 994484011847 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 994484011848 MASE2 domain; Region: MASE2; pfam05230 994484011849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484011850 metal binding site [ion binding]; metal-binding site 994484011851 active site 994484011852 I-site; other site 994484011853 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484011854 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 994484011855 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 994484011856 FAD binding domain; Region: FAD_binding_4; pfam01565 994484011857 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 994484011858 FAD binding domain; Region: FAD_binding_4; pfam01565 994484011859 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 994484011860 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 alpha-; Region: HCP_like; cl14655 994484011861 Cysteine-rich domain; Region: CCG; pfam02754 994484011862 Cysteine-rich domain; Region: CCG; pfam02754 994484011863 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 994484011864 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 994484011865 Protein of unknown function (DUF796); Region: DUF796; cl01226 994484011866 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 994484011867 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 994484011868 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 994484011869 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 994484011870 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 994484011871 Walker A/P-loop; other site 994484011872 ATP binding site [chemical binding]; other site 994484011873 Q-loop/lid; other site 994484011874 ABC transporter signature motif; other site 994484011875 Walker B; other site 994484011876 D-loop; other site 994484011877 H-loop/switch region; other site 994484011878 Sulfatase; Region: Sulfatase; cl10460 994484011879 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 994484011880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011881 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484011882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011883 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484011884 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 994484011885 putative NAD(P) binding site [chemical binding]; other site 994484011886 active site 994484011887 putative substrate binding site [chemical binding]; other site 994484011888 Bacterial sugar transferase; Region: Bac_transf; cl00939 994484011889 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 994484011890 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 994484011891 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 994484011892 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 994484011893 SLBB domain; Region: SLBB; pfam10531 994484011894 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 994484011895 Chain length determinant protein; Region: Wzz; cl01623 994484011896 Chain length determinant protein; Region: Wzz; cl01623 994484011897 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 994484011898 O-Antigen ligase; Region: Wzy_C; cl04850 994484011899 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 994484011900 active site 994484011901 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 994484011902 DXD motif; other site 994484011903 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 994484011904 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484011905 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484011906 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 994484011907 YdjC-like protein; Region: YdjC; cl01344 994484011908 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 994484011909 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484011910 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484011911 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 994484011912 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 994484011913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011914 dimer interface [polypeptide binding]; other site 994484011915 conserved gate region; other site 994484011916 putative PBP binding loops; other site 994484011917 ABC-ATPase subunit interface; other site 994484011918 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 994484011919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484011920 putative PBP binding loops; other site 994484011921 dimer interface [polypeptide binding]; other site 994484011922 ABC-ATPase subunit interface; other site 994484011923 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 994484011924 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 994484011925 Walker A/P-loop; other site 994484011926 ATP binding site [chemical binding]; other site 994484011927 Q-loop/lid; other site 994484011928 ABC transporter signature motif; other site 994484011929 Walker B; other site 994484011930 D-loop; other site 994484011931 H-loop/switch region; other site 994484011932 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 994484011933 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 994484011934 Walker A/P-loop; other site 994484011935 ATP binding site [chemical binding]; other site 994484011936 Q-loop/lid; other site 994484011937 ABC transporter signature motif; other site 994484011938 Walker B; other site 994484011939 D-loop; other site 994484011940 H-loop/switch region; other site 994484011941 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484011942 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...; Region: AAA; cd00009 994484011943 Walker A motif; other site 994484011944 ATP binding site [chemical binding]; other site 994484011945 Walker B motif; other site 994484011946 arginine finger; other site 994484011947 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484011948 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 994484011949 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 994484011950 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484011951 putative substrate translocation pore; other site 994484011952 AzlC protein; Region: AzlC; cl00570 994484011953 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484011954 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484011955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011956 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011957 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 994484011958 putative effector binding pocket; other site 994484011959 dimerization interface [polypeptide binding]; other site 994484011960 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 994484011961 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (...; Region: APH; cd05150 994484011962 active site 994484011963 antibiotic binding site [chemical binding]; other site 994484011964 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 C-...; Region: PDZ_serine_protease; cd00987 994484011965 protein binding site [polypeptide binding]; other site 994484011966 Predicted membrane protein [Function unknown]; Region: COG4125 994484011967 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 994484011968 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 994484011969 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484011970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011971 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 994484011972 dimerization interface [polypeptide binding]; other site 994484011973 substrate binding pocket [chemical binding]; other site 994484011974 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484011975 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484011976 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 994484011977 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; cl01116 994484011978 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 994484011979 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 994484011980 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 994484011981 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 994484011982 Pirin-related protein [General function prediction only]; Region: COG1741 994484011983 Cupin domain; Region: Cupin_2; cl09118 994484011984 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 994484011985 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484011986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011987 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484011988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484011990 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 994484011991 dimerization interface [polypeptide binding]; other site 994484011992 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484011993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011994 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 994484011995 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 994484011996 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 994484011997 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 994484011998 Phage-related protein, tail component [Function unknown]; Region: COG4733 994484011999 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 994484012000 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 994484012001 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 994484012002 MPN+ (JAMM) motif; other site 994484012003 Zinc-binding site [ion binding]; other site 994484012004 NlpC/P60 family; Region: NLPC_P60; cl11438 994484012005 Phage minor tail protein L; Region: Phage_tail_L; cl01908 994484012006 Phage minor tail protein; Region: Phage_min_tail; cl01940 994484012007 Phage-related minor tail protein [Function unknown]; Region: COG5281 994484012008 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 994484012009 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 994484012010 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 994484012011 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 994484012012 Phage tail protein; Region: Phage_tail_3; pfam08813 994484012013 HeH/LEM domain; Region: HeH; pfam12949 994484012014 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 994484012015 Terminase-like family; Region: Terminase_6; pfam03237 994484012016 large terminase protein; Provisional; Region: 17; PHA02533 994484012017 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 994484012018 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 994484012019 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 994484012020 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 994484012021 BRO family, N-terminal domain; Region: Bro-N; cl10591 994484012022 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484012023 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 994484012024 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 994484012025 non-specific DNA binding site [nucleotide binding]; other site 994484012026 salt bridge; other site 994484012027 sequence-specific DNA binding site [nucleotide binding]; other site 994484012028 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 (...; Region: S24_LexA-like; cd06529 994484012029 Catalytic site [active] 994484012030 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 994484012031 DnaJ_C chaperone protein; Provisional; Region: PTZ00037 994484012032 RecT family; Region: RecT; cl04285 994484012033 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 994484012034 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 994484012035 Phage integrase family; Region: Phage_integrase; pfam00589 994484012036 DNA binding site [nucleotide binding] 994484012037 Int/Topo IB signature motif; other site 994484012038 active site 994484012039 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484012040 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484012041 oxidoreductase; Validated; Region: PRK05717 994484012042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012043 NAD(P) binding site [chemical binding]; other site 994484012044 active site 994484012045 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 994484012046 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 994484012047 homodimer interface [polypeptide binding]; other site 994484012048 substrate-cofactor binding pocket; other site 994484012049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012050 catalytic residue [active] 994484012051 amidophosphoribosyltransferase; Provisional; Region: PRK09246 994484012052 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 994484012053 active site 994484012054 tetramer interface [polypeptide binding]; other site 994484012055 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484012056 Colicin V production protein; Region: Colicin_V; cl00567 994484012057 Sporulation related domain; Region: SPOR; cl10051 994484012058 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 994484012059 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484012060 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 994484012061 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484012062 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 994484012063 active site 994484012064 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 994484012065 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 994484012066 dimerization interface 3.5A [polypeptide binding]; other site 994484012067 active site 994484012068 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 994484012069 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 994484012070 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 994484012071 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 994484012072 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 994484012073 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 994484012074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012075 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 994484012076 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 994484012077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012078 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 994484012079 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 994484012080 isocitrate dehydrogenase; Validated; Region: PRK06451 994484012081 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 994484012082 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 994484012083 S-adenosylmethionine binding site [chemical binding]; other site 994484012084 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 3-...; Region: IPMI_Swivel; cd01577 994484012085 substrate binding site [chemical binding]; other site 994484012086 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 994484012087 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 994484012088 substrate binding site [chemical binding]; other site 994484012089 ligand binding site [chemical binding]; other site 994484012090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484012092 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 994484012093 dimerization interface [polypeptide binding]; other site 994484012094 PAS fold; Region: PAS_3; pfam08447 994484012095 putative diguanylate cyclase; Provisional; Region: PRK09776 994484012096 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 994484012097 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484012098 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 994484012099 PAS domain S-box; Region: sensory_box; TIGR00229 994484012100 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 994484012101 putative active site [active] 994484012102 heme pocket [chemical binding]; other site 994484012103 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484012104 metal binding site [ion binding]; metal-binding site 994484012105 active site 994484012106 I-site; other site 994484012107 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 994484012108 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 994484012109 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...; Region: ACD_IbpA-B_like; cd06470 994484012110 putative dimer interface [polypeptide binding]; other site 994484012111 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 994484012112 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...; Region: DUS_like_FMN; cd02801 994484012113 FMN binding site [chemical binding]; other site 994484012114 active site 994484012115 catalytic residues [active] 994484012116 substrate binding site [chemical binding]; other site 994484012117 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...; Region: 4HBT; cd00586 994484012118 active site 994484012119 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484012121 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012122 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 994484012123 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 994484012124 active site 994484012125 HIGH motif; other site 994484012126 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 994484012127 active site 994484012128 KMSKS motif; other site 994484012129 excinuclease ABC subunit B; Provisional; Region: PRK05298 994484012130 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 994484012131 ATP binding site [chemical binding]; other site 994484012132 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 994484012133 nucleotide binding region [chemical binding]; other site 994484012134 ATP-binding site [chemical binding]; other site 994484012135 Ultra-violet resistance protein B; Region: UvrB; pfam12344 994484012136 UvrB/uvrC motif; Region: UVR; pfam02151 994484012137 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 994484012138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012139 homodimer interface [polypeptide binding]; other site 994484012140 catalytic residue [active] 994484012141 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484012142 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...; Region: SHMT; cd00378 994484012143 dimer interface [polypeptide binding]; other site 994484012144 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484012145 active site 994484012146 folate binding site [chemical binding]; other site 994484012147 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 994484012148 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484012149 catalytic residue [active] 994484012150 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 994484012151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012152 DNA-binding site [nucleotide binding]; DNA binding site 994484012153 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 994484012154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012155 homodimer interface [polypeptide binding]; other site 994484012156 catalytic residue [active] 994484012157 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 994484012158 Domain of unknown function DUF20; Region: UPF0118; cl00465 994484012159 putative protease; Provisional; Region: PRK15452 994484012160 Peptidase family U32; Region: Peptidase_U32; cl03113 994484012161 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 994484012162 Cache domain; Region: Cache_2; cl07034 994484012163 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484012164 dimerization interface [polypeptide binding]; other site 994484012165 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484012166 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484012167 Predicted permease [General function prediction only]; Region: COG2056 994484012168 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; cl09110 994484012169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484012170 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 994484012171 ATP binding site [chemical binding]; other site 994484012172 G-X-G motif; other site 994484012173 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484012174 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 994484012175 active site 994484012176 phosphorylation site [posttranslational modification] 994484012177 intermolecular recognition site; other site 994484012178 dimerization interface [polypeptide binding]; other site 994484012179 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...; Region: trans_reg_C; cd00383 994484012180 DNA binding site [nucleotide binding] 994484012181 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484012182 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484012183 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 994484012184 active site 994484012185 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012186 Sodium:solute symporter family; Region: SSF; cl00456 994484012187 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 994484012188 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...; Region: Bact_CD; cd01293 994484012189 active site 994484012190 diaminopimelate epimerase; Provisional; Region: PRK13577 994484012191 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484012192 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484012193 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 994484012194 ligand binding site [chemical binding]; other site 994484012195 flexible hinge region; other site 994484012196 Pirin-related protein [General function prediction only]; Region: COG1741 994484012197 Cupin domain; Region: Cupin_2; cl09118 994484012198 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 994484012199 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484012200 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 994484012201 active site 994484012202 phosphorylation site [posttranslational modification] 994484012203 intermolecular recognition site; other site 994484012204 dimerization interface [polypeptide binding]; other site 994484012205 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...; Region: LuxR_C_like; cd06170 994484012206 DNA binding residues [nucleotide binding] 994484012207 dimerization interface [polypeptide binding]; other site 994484012208 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 994484012209 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484012210 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...; Region: PBPb; cd00134 994484012211 substrate binding pocket [chemical binding]; other site 994484012212 membrane-bound complex binding site; other site 994484012213 hinge residues; other site 994484012214 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...; Region: PBPb; cd00134 994484012215 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484012216 substrate binding pocket [chemical binding]; other site 994484012217 membrane-bound complex binding site; other site 994484012218 hinge residues; other site 994484012219 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 trans-...; Region: HisKA; cd00082 994484012220 dimer interface [polypeptide binding]; other site 994484012221 phosphorylation site [posttranslational modification] 994484012222 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 994484012223 ATP binding site [chemical binding]; other site 994484012224 Mg2+ binding site [ion binding]; other site 994484012225 G-X-G motif; other site 994484012226 Response regulator receiver domain; Region: Response_reg; pfam00072 994484012227 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 994484012228 active site 994484012229 phosphorylation site [posttranslational modification] 994484012230 intermolecular recognition site; other site 994484012231 dimerization interface [polypeptide binding]; other site 994484012232 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 994484012233 putative binding surface; other site 994484012234 active site 994484012235 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 994484012236 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484012237 RNA polymerase sigma factor; Reviewed; Region: PRK12527 994484012238 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...; Region: Sigma70_r4; cd06171 994484012239 DNA binding residues [nucleotide binding] 994484012240 macrolide transporter subunit MacA; Provisional; Region: PRK11578 994484012241 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...; Region: Biotinyl_lipoyl_domains; cl11404 994484012242 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 994484012243 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 994484012244 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 994484012245 Walker A/P-loop; other site 994484012246 ATP binding site [chemical binding]; other site 994484012247 Q-loop/lid; other site 994484012248 ABC transporter signature motif; other site 994484012249 Walker B; other site 994484012250 D-loop; other site 994484012251 H-loop/switch region; other site 994484012252 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484012253 FtsX-like permease family; Region: FtsX; pfam02687 994484012254 NodT family; Region: outer_NodT; TIGR01845 994484012255 Outer membrane efflux protein; Region: OEP; pfam02321 994484012256 Outer membrane efflux protein; Region: OEP; pfam02321 994484012257 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 994484012258 active site 994484012259 dimer interface [polypeptide binding]; other site 994484012260 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 994484012261 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 994484012262 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484012263 catalytic residue [active] 994484012264 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 994484012265 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 994484012266 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 994484012267 Walker A/P-loop; other site 994484012268 ATP binding site [chemical binding]; other site 994484012269 Q-loop/lid; other site 994484012270 ABC transporter signature motif; other site 994484012271 Walker B; other site 994484012272 D-loop; other site 994484012273 H-loop/switch region; other site 994484012274 Condensation domain; Region: Condensation; cl09290 994484012275 peptide synthase; Provisional; Region: PRK12467 994484012276 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012277 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012278 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 994484012279 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484012280 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 994484012281 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 994484012282 N-terminal plug; other site 994484012283 ligand-binding site [chemical binding]; other site 994484012284 Condensation domain; Region: Condensation; cl09290 994484012285 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484012286 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012287 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012288 Condensation domain; Region: Condensation; cl09290 994484012289 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484012290 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012291 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012292 Condensation domain; Region: Condensation; cl09290 994484012293 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484012294 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012295 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012296 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012297 Condensation domain; Region: Condensation; cl09290 994484012298 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484012299 Condensation domain; Region: Condensation; cl09290 994484012300 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484012301 acyl-CoA synthetase; Validated; Region: PRK05852 994484012302 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012303 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012304 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012305 Condensation domain; Region: Condensation; cl09290 994484012306 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484012307 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 994484012308 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484012309 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012310 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012311 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484012312 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012313 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012314 Condensation domain; Region: Condensation; cl09290 994484012315 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484012316 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 994484012317 Condensation domain; Region: Condensation; cl09290 994484012318 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012319 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012320 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012321 Condensation domain; Region: Condensation; cl09290 994484012322 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484012323 Condensation domain; Region: Condensation; cl09290 994484012324 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484012325 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012326 Condensation domain; Region: Condensation; cl09290 994484012327 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484012328 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484012329 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012330 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 994484012331 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 994484012332 trans-aconitate 2-methyltransferase; Provisional; Region: PRK01683 994484012333 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 994484012334 S-adenosylmethionine binding site [chemical binding]; other site 994484012335 SCP-2 sterol transfer family; Region: SCP2; cl01225 994484012336 glucose-1-dehydrogenase; Provisional; Region: PRK08936 994484012337 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 994484012338 NAD binding site [chemical binding]; other site 994484012339 homodimer interface [polypeptide binding]; other site 994484012340 active site 994484012341 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 994484012342 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 994484012343 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484012344 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012345 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484012346 conserved cys residue [active] 994484012347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012349 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 994484012350 conserved cys residue [active] 994484012351 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 994484012352 short chain dehydrogenase; Provisional; Region: PRK08219 994484012353 classical (c) SDRs; Region: SDR_c; cd05233 994484012354 NAD(P) binding site [chemical binding]; other site 994484012355 active site 994484012356 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484012357 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012359 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 994484012360 putative hydrophobic ligand binding site [chemical binding]; other site 994484012361 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 994484012362 threonine and homoserine efflux system; Provisional; Region: PRK10532 994484012363 EamA-like transporter family; Region: EamA; cl01037 994484012364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484012365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012366 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 994484012367 putative NAD(P) binding site [chemical binding]; other site 994484012368 active site 994484012369 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 994484012370 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 1,2-; Region: DsbA_HCCA_Iso; cd03022 994484012371 putative catalytic residue [active] 994484012372 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 994484012373 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 994484012374 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 994484012375 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 994484012376 active site 994484012377 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 994484012378 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 994484012379 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484012380 catalytic residue [active] 994484012381 LysE type translocator; Region: LysE; cl00565 994484012382 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484012383 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 994484012384 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 994484012385 DNA binding residues [nucleotide binding] 994484012386 dimer interface [polypeptide binding]; other site 994484012387 [2Fe-2S] cluster binding site [ion binding]; other site 994484012388 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_8; cd07246 994484012389 putative dimer interface [polypeptide binding]; other site 994484012390 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484012391 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484012392 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 994484012393 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 994484012394 metal binding site [ion binding]; metal-binding site 994484012395 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 994484012396 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 iron-...; Region: ABC_Metallic_Cations; cd03235 994484012397 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...; Region: TM_ABC_iron-siderophores_like; cd06550 994484012398 ABC-ATPase subunit interface; other site 994484012399 dimer interface [polypeptide binding]; other site 994484012400 putative PBP binding regions; other site 994484012401 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...; Region: TroA-like; cl00262 994484012402 intersubunit interface [polypeptide binding]; other site 994484012403 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 994484012404 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 994484012405 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 994484012406 substrate binding site [chemical binding]; other site 994484012407 ligand binding site [chemical binding]; other site 994484012408 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 994484012409 substrate binding site [chemical binding]; other site 994484012410 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 994484012411 dimer interface [polypeptide binding]; other site 994484012412 Citrate synthase; Region: Citrate_synt; pfam00285 994484012413 active site 994484012414 citrylCoA binding site [chemical binding]; other site 994484012415 oxalacetate/citrate binding site [chemical binding]; other site 994484012416 coenzyme A binding site [chemical binding]; other site 994484012417 catalytic triad [active] 994484012418 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 994484012419 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 994484012420 tetramer interface [polypeptide binding]; other site 994484012421 active site 994484012422 Mg2+/Mn2+ binding site [ion binding]; other site 994484012423 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484012424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012425 DNA-binding site [nucleotide binding]; DNA binding site 994484012426 FCD domain; Region: FCD; cl11656 994484012427 Protein of unknown function (DUF785); Region: DUF785; cl01682 994484012428 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484012429 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 994484012430 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 994484012431 chorismate binding enzyme; Region: Chorismate_bind; cl10555 994484012432 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; cl11391 994484012433 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484012434 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 994484012435 Active Sites [active] 994484012436 Sodium:solute symporter family; Region: SSF; cl00456 994484012437 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484012438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484012440 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 994484012441 putative effector binding pocket; other site 994484012442 dimerization interface [polypeptide binding]; other site 994484012443 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484012444 classical (c) SDRs; Region: SDR_c; cd05233 994484012445 NAD(P) binding site [chemical binding]; other site 994484012446 active site 994484012447 riboflavin kinase; Region: PLN02940 994484012448 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 994484012449 motif II; other site 994484012450 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484012451 GAF domain; Region: GAF; cl00853 994484012452 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 trans-...; Region: HisKA; cd00082 994484012453 dimer interface [polypeptide binding]; other site 994484012454 phosphorylation site [posttranslational modification] 994484012455 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 994484012456 ATP binding site [chemical binding]; other site 994484012457 Mg2+ binding site [ion binding]; other site 994484012458 G-X-G motif; other site 994484012459 Response regulator receiver domain; Region: Response_reg; pfam00072 994484012460 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 994484012461 active site 994484012462 phosphorylation site [posttranslational modification] 994484012463 intermolecular recognition site; other site 994484012464 dimerization interface [polypeptide binding]; other site 994484012465 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 994484012466 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 994484012467 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 994484012468 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484012469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484012470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484012471 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484012472 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 994484012473 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 994484012474 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012475 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 994484012476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484012477 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 994484012478 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 994484012479 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 994484012480 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 994484012481 active site 994484012482 metal binding site [ion binding]; metal-binding site 994484012483 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484012484 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484012485 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 994484012486 Phd_YefM; Region: PhdYeFM; cl09153 994484012487 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484012488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012489 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484012490 classical (c) SDRs; Region: SDR_c; cd05233 994484012491 NAD(P) binding site [chemical binding]; other site 994484012492 active site 994484012493 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484012494 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 994484012495 D-galactonate transporter; Region: 2A0114; TIGR00893 994484012496 putative substrate translocation pore; other site 994484012497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484012498 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012499 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 994484012500 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 994484012501 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484012502 putative substrate translocation pore; other site 994484012503 enoyl-CoA hydratase; Provisional; Region: PRK06213 994484012504 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 994484012505 substrate binding site [chemical binding]; other site 994484012506 oxyanion hole (OAH) forming residues; other site 994484012507 trimer interface [polypeptide binding]; other site 994484012508 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 994484012509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484012510 putative acyl-acceptor binding pocket; other site 994484012511 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 994484012512 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 994484012513 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 994484012514 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 994484012515 catalytic triad [active] 994484012516 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 994484012517 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 994484012518 substrate binding site [chemical binding]; other site 994484012519 oxyanion hole (OAH) forming residues; other site 994484012520 trimer interface [polypeptide binding]; other site 994484012521 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484012522 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484012523 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 994484012524 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 994484012525 dimer interface [polypeptide binding]; other site 994484012526 active site 994484012527 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484012528 Cytochrome c; Region: Cytochrom_C; cl11414 994484012529 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484012530 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 994484012531 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 994484012532 Uncharacterized conserved protein [Function unknown]; Region: COG2308 994484012533 Domain of unknown function (DUF404); Region: DUF404; pfam04169 994484012534 Domain of unknown function (DUF407); Region: DUF407; pfam04174 994484012535 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 994484012536 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 994484012537 putative lipid binding site [chemical binding]; other site 994484012538 Flagellin N-methylase; Region: FliB; cl00497 994484012539 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 994484012540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012541 DNA-binding site [nucleotide binding]; DNA binding site 994484012542 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 994484012543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012544 homodimer interface [polypeptide binding]; other site 994484012545 catalytic residue [active] 994484012546 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484012547 ligand binding site [chemical binding]; other site 994484012548 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...; Region: PBPb; cd00134 994484012549 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484012550 substrate binding pocket [chemical binding]; other site 994484012551 membrane-bound complex binding site; other site 994484012552 hinge residues; other site 994484012553 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 994484012554 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 994484012555 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 994484012556 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 994484012557 Ligand binding site [chemical binding]; other site 994484012558 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 994484012559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012560 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 994484012561 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484012562 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484012563 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012564 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484012565 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 994484012566 putative NAD(P) binding site [chemical binding]; other site 994484012567 putative substrate binding site [chemical binding]; other site 994484012568 catalytic Zn binding site [ion binding]; other site 994484012569 structural Zn binding site [ion binding]; other site 994484012570 dimer interface [polypeptide binding]; other site 994484012571 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484012572 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484012573 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484012574 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 994484012575 D-galactonate transporter; Region: 2A0114; TIGR00893 994484012576 putative substrate translocation pore; other site 994484012577 galactonate dehydratase; Provisional; Region: PRK14017 994484012578 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 994484012579 putative active site pocket [active] 994484012580 putative metal binding site [ion binding]; other site 994484012581 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 994484012582 Entner-Doudoroff aldolase; Region: eda; TIGR01182 994484012583 active site 994484012584 intersubunit interface [polypeptide binding]; other site 994484012585 catalytic residue [active] 994484012586 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 994484012587 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 994484012588 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484012589 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 994484012590 putative C-terminal domain interface [polypeptide binding]; other site 994484012591 putative GSH binding site (G-site) [chemical binding]; other site 994484012592 putative dimer interface [polypeptide binding]; other site 994484012593 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 994484012594 putative N-terminal domain interface [polypeptide binding]; other site 994484012595 putative dimer interface [polypeptide binding]; other site 994484012596 putative substrate binding pocket (H-site) [chemical binding]; other site 994484012597 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484012598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484012599 Coenzyme A binding pocket [chemical binding]; other site 994484012600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484012601 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 994484012602 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 994484012603 TM-ABC transporter signature motif; other site 994484012604 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 994484012605 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...; Region: ABC_Carb_Monos_I; cd03216 994484012606 Walker A/P-loop; other site 994484012607 ATP binding site [chemical binding]; other site 994484012608 Q-loop/lid; other site 994484012609 ABC transporter signature motif; other site 994484012610 Walker B; other site 994484012611 D-loop; other site 994484012612 H-loop/switch region; other site 994484012613 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 994484012614 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 994484012615 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 994484012616 ligand binding site [chemical binding]; other site 994484012617 short chain dehydrogenase; Provisional; Region: PRK07063 994484012618 classical (c) SDRs; Region: SDR_c; cd05233 994484012619 NAD(P) binding site [chemical binding]; other site 994484012620 active site 994484012621 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 994484012622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012623 DNA-binding site [nucleotide binding]; DNA binding site 994484012624 FCD domain; Region: FCD; cl11656 994484012625 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 994484012626 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 994484012627 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 994484012628 FeS/SAM binding site; other site 994484012629 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 994484012630 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484012631 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012632 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 994484012633 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 994484012634 active site 994484012635 PilZ domain; Region: PilZ; cl01260 994484012636 DNA polymerase III subunit delta'; Validated; Region: PRK05707 994484012637 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484012638 thymidylate kinase; Validated; Region: tmk; PRK00698 994484012639 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...; Region: TMPK; cd01672 994484012640 TMP-binding site; other site 994484012641 ATP-binding site [chemical binding]; other site 994484012642 YceG-like family; Region: YceG; pfam02618 994484012643 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 994484012644 dimerization interface [polypeptide binding]; other site 994484012645 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 994484012646 Aminotransferase class IV; Region: Aminotran_4; pfam01063 994484012647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012648 catalytic residue [active] 994484012649 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 994484012650 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 994484012651 dimer interface [polypeptide binding]; other site 994484012652 active site 994484012653 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484012654 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484012655 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 994484012656 NAD(P) binding site [chemical binding]; other site 994484012657 homotetramer interface [polypeptide binding]; other site 994484012658 homodimer interface [polypeptide binding]; other site 994484012659 active site 994484012660 Acyl transferase domain; Region: Acyl_transf_1; cl08282 994484012661 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 994484012662 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 994484012663 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 994484012664 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 994484012665 Maf-like protein; Region: Maf; pfam02545 994484012666 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 994484012667 active site 994484012668 dimer interface [polypeptide binding]; other site 994484012669 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 994484012670 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 994484012671 tandem repeat interface [polypeptide binding]; other site 994484012672 oligomer interface [polypeptide binding]; other site 994484012673 active site residues [active] 994484012674 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484012675 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 994484012676 motif II; other site 994484012677 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 994484012678 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 994484012679 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 994484012680 active site 994484012681 ribonuclease E; Reviewed; Region: rne; PRK10811 994484012682 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 994484012683 homodimer interface [polypeptide binding]; other site 994484012684 oligonucleotide binding site [chemical binding]; other site 994484012685 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 994484012686 Ligand binding site [chemical binding]; other site 994484012687 metal binding site [ion binding]; metal-binding site 994484012688 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 994484012689 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 994484012690 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484012691 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484012692 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 994484012693 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484012694 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484012695 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484012696 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 994484012697 catalytic loop [active] 994484012698 iron binding site [ion binding]; other site 994484012699 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484012700 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 994484012701 FAD binding domain; Region: FAD_binding_4; pfam01565 994484012702 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 994484012703 Low molecular weight phosphatase family; Region: LMWPc; cd00115 994484012704 Active site [active] 994484012705 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 994484012706 Ligand binding site [chemical binding]; other site 994484012707 oligomer interface [polypeptide binding]; other site 994484012708 Trm112p-like protein; Region: Trm112p; cl01066 994484012709 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 994484012710 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 994484012711 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 994484012712 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 994484012713 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484012714 Competence protein; Region: Competence; cl00471 994484012715 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484012716 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 994484012717 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484012718 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 994484012719 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484012720 Walker A/P-loop; other site 994484012721 ATP binding site [chemical binding]; other site 994484012722 Q-loop/lid; other site 994484012723 ABC transporter signature motif; other site 994484012724 Walker B; other site 994484012725 D-loop; other site 994484012726 H-loop/switch region; other site 994484012727 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484012728 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 994484012729 putative C-terminal domain interface [polypeptide binding]; other site 994484012730 putative GSH binding site (G-site) [chemical binding]; other site 994484012731 putative dimer interface [polypeptide binding]; other site 994484012732 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 994484012733 putative N-terminal domain interface [polypeptide binding]; other site 994484012734 putative dimer interface [polypeptide binding]; other site 994484012735 putative substrate binding pocket (H-site) [chemical binding]; other site 994484012736 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 994484012737 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 994484012738 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 994484012739 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 994484012740 active site 994484012741 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 994484012742 transcriptional activator TtdR; Provisional; Region: PRK09801 994484012743 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 994484012744 putative effector binding pocket; other site 994484012745 dimerization interface [polypeptide binding]; other site 994484012746 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 994484012747 alanine-tRNA ligase; Region: PLN02961 994484012748 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 994484012749 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 994484012750 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 994484012751 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 994484012752 binding surface 994484012753 TPR motif; other site 994484012754 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 994484012755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484012756 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484012757 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484012758 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 994484012759 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 994484012760 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 994484012761 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 994484012762 ATP binding site [chemical binding]; other site 994484012763 Walker A motif; other site 994484012764 hexamer interface [polypeptide binding]; other site 994484012765 Walker B motif; other site 994484012766 Response regulator receiver domain; Region: Response_reg; pfam00072 994484012767 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 994484012768 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...; Region: CpaE_like; cd03111 994484012769 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 994484012770 SAF domain; Region: SAF; cl00555 994484012771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484012772 Walker A motif; other site 994484012773 ATP binding site [chemical binding]; other site 994484012774 Walker B motif; other site 994484012775 arginine finger; other site 994484012776 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 994484012777 Flp/Fap pilin component; Region: Flp_Fap; cl01585 994484012778 Flp/Fap pilin component; Region: Flp_Fap; cl01585 994484012779 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 994484012780 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484012781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012782 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484012783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484012784 Predicted membrane protein [Function unknown]; Region: COG2364 994484012785 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 994484012786 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 994484012787 FeS/SAM binding site; other site 994484012788 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 994484012789 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 994484012790 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484012791 catalytic residue [active] 994484012792 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 994484012793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012794 homodimer interface [polypeptide binding]; other site 994484012795 catalytic residue [active] 994484012796 LysE type translocator; Region: LysE; cl00565 994484012797 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484012798 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484012799 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484012800 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484012801 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 994484012802 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012803 DNA-binding site [nucleotide binding]; DNA binding site 994484012804 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 994484012805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012806 homodimer interface [polypeptide binding]; other site 994484012807 catalytic residue [active] 994484012808 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 994484012809 classical (c) SDRs; Region: SDR_c; cd05233 994484012810 NAD(P) binding site [chemical binding]; other site 994484012811 active site 994484012812 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 994484012813 Prostaglandin dehydrogenases; Region: PGDH; cd05288 994484012814 NAD(P) binding site [chemical binding]; other site 994484012815 substrate binding site [chemical binding]; other site 994484012816 dimer interface [polypeptide binding]; other site 994484012817 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 994484012818 active site 994484012819 dimer interface [polypeptide binding]; other site 994484012820 osmolarity response regulator; Provisional; Region: ompR; PRK09468 994484012821 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 994484012822 active site 994484012823 phosphorylation site [posttranslational modification] 994484012824 intermolecular recognition site; other site 994484012825 dimerization interface [polypeptide binding]; other site 994484012826 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...; Region: trans_reg_C; cd00383 994484012827 DNA binding site [nucleotide binding] 994484012828 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484012829 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 trans-...; Region: HisKA; cl00080 994484012830 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 994484012831 ATP binding site [chemical binding]; other site 994484012832 Mg2+ binding site [ion binding]; other site 994484012833 G-X-G motif; other site 994484012834 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 994484012835 Ca2+ binding site [ion binding]; other site 994484012836 Domain of unknown function DUF20; Region: UPF0118; cl00465 994484012837 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012838 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012839 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 994484012840 CoenzymeA binding site [chemical binding]; other site 994484012841 subunit interaction site [polypeptide binding]; other site 994484012842 PHB binding site; other site 994484012843 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 994484012844 catalytic core [active] 994484012845 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 994484012846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012847 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 994484012848 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 994484012849 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 994484012850 N-terminal plug; other site 994484012851 ligand-binding site [chemical binding]; other site 994484012852 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484012853 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484012854 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 trans-...; Region: HisKA; cd00082 994484012855 dimer interface [polypeptide binding]; other site 994484012856 phosphorylation site [posttranslational modification] 994484012857 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 994484012858 ATP binding site [chemical binding]; other site 994484012859 Mg2+ binding site [ion binding]; other site 994484012860 G-X-G motif; other site 994484012861 Response regulator receiver domain; Region: Response_reg; pfam00072 994484012862 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 994484012863 active site 994484012864 phosphorylation site [posttranslational modification] 994484012865 intermolecular recognition site; other site 994484012866 dimerization interface [polypeptide binding]; other site 994484012867 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 994484012868 active site 1 [active] 994484012869 dimer interface [polypeptide binding]; other site 994484012870 active site 2 [active] 994484012871 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 994484012872 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 994484012873 dimer interface [polypeptide binding]; other site 994484012874 active site 994484012875 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 994484012876 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...; Region: metallo-dependent_hydrolases; cl00281 994484012877 Cupin domain; Region: Cupin_2; cl09118 994484012878 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 994484012879 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 994484012880 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 994484012881 heat shock protein 90; Provisional; Region: PRK05218 994484012882 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 994484012883 EamA-like transporter family; Region: EamA; cl01037 994484012884 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484012885 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 994484012886 CoenzymeA binding site [chemical binding]; other site 994484012887 subunit interaction site [polypeptide binding]; other site 994484012888 PHB binding site; other site 994484012889 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 994484012890 CoenzymeA binding site [chemical binding]; other site 994484012891 subunit interaction site [polypeptide binding]; other site 994484012892 PHB binding site; other site 994484012893 Protein of unknown function, DUF599; Region: DUF599; cl01575 994484012894 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 994484012895 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 994484012896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012897 CoA-ligase; Region: Ligase_CoA; pfam00549 994484012898 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 994484012899 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484012900 CoA-ligase; Region: Ligase_CoA; pfam00549 994484012901 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 994484012902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012904 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484012905 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 994484012906 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 994484012907 E3 interaction surface; other site 994484012908 lipoyl attachment site [posttranslational modification]; other site 994484012909 e3 binding domain; Region: E3_binding; pfam02817 994484012910 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 994484012911 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 994484012912 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 994484012913 TPP-binding site [chemical binding]; other site 994484012914 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 994484012915 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 994484012916 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 994484012917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012918 domain; Region: Succ_DH_flav_C; pfam02910 994484012919 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 994484012920 SdhC subunit interface [polypeptide binding]; other site 994484012921 proximal heme binding site [chemical binding]; other site 994484012922 cardiolipin binding site; other site 994484012923 Iron-sulfur protein interface; other site 994484012924 proximal quinone binding site [chemical binding]; other site 994484012925 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 994484012926 Iron-sulfur protein interface; other site 994484012927 proximal quinone binding site [chemical binding]; other site 994484012928 SdhD (CybS) interface [polypeptide binding]; other site 994484012929 proximal heme binding site [chemical binding]; other site 994484012930 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 994484012931 dimer interface [polypeptide binding]; other site 994484012932 Citrate synthase; Region: Citrate_synt; pfam00285 994484012933 active site 994484012934 citrylCoA binding site [chemical binding]; other site 994484012935 NADH binding [chemical binding]; other site 994484012936 cationic pore residues; other site 994484012937 oxalacetate/citrate binding site [chemical binding]; other site 994484012938 coenzyme A binding site [chemical binding]; other site 994484012939 catalytic triad [active] 994484012940 Sodium:solute symporter family; Region: SSF; cl00456 994484012941 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 994484012942 Protein of unknown function, DUF485; Region: DUF485; cl01231 994484012943 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484012944 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484012945 VacJ like lipoprotein; Region: VacJ; cl01073 994484012946 Protein of unknown function (DUF808); Region: DUF808; cl01002 994484012947 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 994484012948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012949 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 994484012950 Transposase IS200 like; Region: Y1_Tnp; cl00848 994484012951 Domain of unknown function (DUF336); Region: DUF336; cl01249 994484012952 glyoxylate carboligase; Provisional; Region: PRK11269 994484012953 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484012954 PYR/PP interface [polypeptide binding]; other site 994484012955 dimer interface [polypeptide binding]; other site 994484012956 TPP binding site [chemical binding]; other site 994484012957 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484012958 TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the condensation of two molecules of glyoxylate to give...; Region: TPP_Gcl; cd02006 994484012959 TPP-binding site [chemical binding]; other site 994484012960 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 994484012961 tartronate semialdehyde reductase; Provisional; Region: PRK15059 994484012962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012963 MOFRL family; Region: MOFRL; cl01013 994484012964 pyruvate kinase; Provisional; Region: PRK06247 994484012965 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 994484012966 domain interfaces; other site 994484012967 active site 994484012968 Urea transporter; Region: UT; cl01829 994484012969 Ion transport protein; Region: Ion_trans; pfam00520 994484012970 Ion channel; Region: Ion_trans_2; cl11596 994484012971 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 994484012972 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484012973 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 994484012974 putative substrate translocation pore; other site 994484012975 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 994484012976 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 994484012977 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 994484012978 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012979 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484012980 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 994484012981 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 994484012982 Cupin domain; Region: Cupin_2; cl09118 994484012983 MFS_1 like family; Region: MFS_1_like; pfam12832 994484012984 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 994484012985 putative substrate translocation pore; other site 994484012986 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 994484012987 Tetramer interface [polypeptide binding]; other site 994484012988 Active site [active] 994484012989 FMN-binding site [chemical binding]; other site 994484012990 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012991 HemK family putative methylases; Region: hemK_fam; TIGR00536 994484012992 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 994484012993 S-adenosylmethionine binding site [chemical binding]; other site 994484012994 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 994484012995 Isochorismatase family; Region: Isochorismatase; pfam00857 994484012996 catalytic triad [active] 994484012997 conserved cis-peptide bond; other site 994484012998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 994484012999 Smr domain; Region: Smr; cl02619 994484013000 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 994484013001 homodecamer interface [polypeptide binding]; other site 994484013002 GTP cyclohydrolase I; Provisional; Region: PLN03044 994484013003 active site 994484013004 putative catalytic site residues [active] 994484013005 zinc binding site [ion binding]; other site 994484013006 GTP-CH-I/GFRP interaction surface; other site 994484013007 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484013008 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 994484013009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013010 homodimer interface [polypeptide binding]; other site 994484013011 catalytic residue [active] 994484013012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484013013 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484013014 Permease family; Region: Xan_ur_permease; pfam00860 994484013015 LysE type translocator; Region: LysE; cl00565 994484013016 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 994484013017 active site 994484013018 homotetramer interface [polypeptide binding]; other site 994484013019 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 994484013020 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484013021 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 994484013022 allantoicase; Provisional; Region: PRK13257 994484013023 Allantoicase repeat; Region: Allantoicase; pfam03561 994484013024 Allantoicase repeat; Region: Allantoicase; pfam03561 994484013025 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 994484013026 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 994484013027 Predicted membrane protein [Function unknown]; Region: COG3748 994484013028 Protein of unknown function (DUF989); Region: DUF989; pfam06181 994484013029 Cytochrome c; Region: Cytochrom_C; cl11414 994484013030 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 994484013031 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 994484013032 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 994484013033 active site 994484013034 nucleophile elbow; other site 994484013035 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 994484013036 putative acyl-acceptor binding pocket; other site 994484013037 septum formation inhibitor; Reviewed; Region: minC; PRK00339 994484013038 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 994484013039 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 994484013040 cell division inhibitor MinD; Provisional; Region: PRK10818 994484013041 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...; Region: MinD; cd02036 994484013042 Switch I; other site 994484013043 Switch II; other site 994484013044 Septum formation topological specificity factor MinE; Region: MinE; cl00538 994484013045 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 994484013046 active site 994484013047 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 994484013048 active site 994484013049 metal binding site [ion binding]; metal-binding site 994484013050 transcriptional regulator protein; Region: phnR; TIGR03337 994484013051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484013052 DNA-binding site [nucleotide binding]; DNA binding site 994484013053 UTRA domain; Region: UTRA; cl01230 994484013054 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 994484013055 Sulfatase; Region: Sulfatase; cl10460 994484013056 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013057 dimer interface [polypeptide binding]; other site 994484013058 conserved gate region; other site 994484013059 putative PBP binding loops; other site 994484013060 ABC-ATPase subunit interface; other site 994484013061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484013062 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484013063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484013064 Walker A/P-loop; other site 994484013065 ATP binding site [chemical binding]; other site 994484013066 Q-loop/lid; other site 994484013067 ABC transporter signature motif; other site 994484013068 Walker B; other site 994484013069 D-loop; other site 994484013070 H-loop/switch region; other site 994484013071 TOBE domain; Region: TOBE_2; cl01440 994484013072 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484013073 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; cl11391 994484013074 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; cl09233 994484013075 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 994484013076 Vitelline membrane outer layer protein I (VMO-I) domain, VMO-I is one of the proteins found in the outer layer of the vitelline membrane of poultry eggs; VMO-I, lysozyme, and VMO-II are tightly bound to ovomucin; this complex forms the backbone of the...; Region: VMO-I; cl00167 994484013077 putative carbohydrate binding site [chemical binding]; other site 994484013078 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 994484013079 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 994484013080 NAD(P) binding site [chemical binding]; other site 994484013081 carboxy-terminal protease; Provisional; Region: PRK11186 994484013082 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 994484013083 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 994484013084 protein binding site [polypeptide binding]; other site 994484013085 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 994484013086 Catalytic dyad [active] 994484013087 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 994484013088 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 994484013089 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain...; Region: CBS_pair_GGDEF_assoc; cd04598 994484013090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484013091 metal binding site [ion binding]; metal-binding site 994484013092 active site 994484013093 I-site; other site 994484013094 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 994484013095 RHS Repeat; Region: RHS_repeat; cl11982 994484013096 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484013097 RHS Repeat; Region: RHS_repeat; cl11982 994484013098 RHS Repeat; Region: RHS_repeat; cl11982 994484013099 RHS Repeat; Region: RHS_repeat; cl11982 994484013100 RHS Repeat; Region: RHS_repeat; cl11982 994484013101 RHS Repeat; Region: RHS_repeat; cl11982 994484013102 RHS Repeat; Region: RHS_repeat; cl11982 994484013103 RHS protein; Region: RHS; pfam03527 994484013104 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484013105 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484013106 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 994484013107 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 994484013108 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 994484013109 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484013110 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 994484013111 putative heme binding pocket [chemical binding]; other site 994484013112 potential frameshift: common BLAST hit: gi|70731752|ref|YP_261494.1| recombination associated protein 994484013113 Putative exonuclease, RdgC; Region: RdgC; cl01122 994484013114 Putative exonuclease, RdgC; Region: RdgC; cl01122 994484013115 Membrane transport protein; Region: Mem_trans; cl09117 994484013116 bile acid transporter; Region: bass; TIGR00841 994484013117 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 994484013118 potential frameshift: common BLAST hit: gi|77457892|ref|YP_347397.1| phospholipid/glycerol acyltransferase 994484013119 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484013120 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 994484013121 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484013122 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484013123 putative acyl-acceptor binding pocket; other site 994484013124 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 994484013125 C4-dicarboxylate transporter/malic acid transport protein; Region: C4dic_mal_tran; pfam03595 994484013126 gating phenylalanine in ion channel; other site 994484013127 Cupin domain; Region: Cupin_2; cl09118 994484013128 Reduced folate carrier; Region: Folate_carrier; pfam01770 994484013129 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484013130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484013131 Sodium:solute symporter family; Region: SSF; cl00456 994484013132 PAS fold; Region: PAS_7; pfam12860 994484013133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484013134 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 trans-...; Region: HisKA; cd00082 994484013135 dimer interface [polypeptide binding]; other site 994484013136 phosphorylation site [posttranslational modification] 994484013137 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 994484013138 ATP binding site [chemical binding]; other site 994484013139 Mg2+ binding site [ion binding]; other site 994484013140 G-X-G motif; other site 994484013141 Response regulator receiver domain; Region: Response_reg; pfam00072 994484013142 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 994484013143 active site 994484013144 phosphorylation site [posttranslational modification] 994484013145 intermolecular recognition site; other site 994484013146 dimerization interface [polypeptide binding]; other site 994484013147 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 994484013148 RmuC family; Region: RmuC; pfam02646 994484013149 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 994484013150 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 994484013151 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue...; Region: GSH_Peroxidase; cd00340 994484013152 catalytic residues [active] 994484013153 dimer interface [polypeptide binding]; other site 994484013154 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 994484013155 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 994484013156 putative substrate translocation pore; other site 994484013157 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484013158 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484013159 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 994484013160 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 994484013161 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 994484013162 catalytic core [active] 994484013163 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 994484013164 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 994484013165 putative dimer interface [polypeptide binding]; other site 994484013166 active site pocket [active] 994484013167 putative cataytic base [active] 994484013168 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 994484013169 homotrimer interface [polypeptide binding]; other site 994484013170 Walker A motif; other site 994484013171 GTP binding site [chemical binding]; other site 994484013172 Walker B motif; other site 994484013173 cobyric acid synthase; Provisional; Region: PRK00784 994484013174 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484013175 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 994484013176 catalytic triad [active] 994484013177 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 994484013178 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 994484013179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013180 homodimer interface [polypeptide binding]; other site 994484013181 catalytic residue [active] 994484013182 CobD/Cbib protein; Region: CobD_Cbib; cl00561 994484013183 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 994484013184 FMN binding site [chemical binding]; other site 994484013185 dimer interface [polypeptide binding]; other site 994484013186 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 994484013187 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484013188 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 994484013189 catalytic triad [active] 994484013190 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484013191 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 994484013192 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...; Region: CobA_CobO_BtuR; cd00561 994484013193 Walker A motif; other site 994484013194 homodimer interface [polypeptide binding]; other site 994484013195 ATP binding site [chemical binding]; other site 994484013196 hydroxycobalamin binding site [chemical binding]; other site 994484013197 Walker B motif; other site 994484013198 Membrane bound L-sorbosone dehydrogenase; Region: SNDH; pfam12303 994484013199 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 994484013200 NlpC/P60 family; Region: NLPC_P60; cl11438 994484013201 NlpC/P60 family; Region: NLPC_P60; cl11438 994484013202 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484013203 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 994484013204 Domain of unknown function DUF20; Region: UPF0118; cl00465 994484013205 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; cl01278 994484013206 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 994484013207 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...; Region: PurM; cd02196 994484013208 dimerization interface [polypeptide binding]; other site 994484013209 putative ATP binding site [chemical binding]; other site 994484013210 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 994484013211 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 994484013212 active site 994484013213 substrate binding site [chemical binding]; other site 994484013214 cosubstrate binding site; other site 994484013215 catalytic site [active] 994484013216 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 994484013217 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 994484013218 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 994484013219 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 994484013220 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 994484013221 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 994484013222 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 994484013223 synthetase active site [active] 994484013224 NTP binding site [chemical binding]; other site 994484013225 metal binding site [ion binding]; metal-binding site 994484013226 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...; Region: TGS_RelA_SpoT; cd01668 994484013227 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 994484013228 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 994484013229 TRAM domain; Region: TRAM; cl01282 994484013230 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; cl12011 994484013231 cysteine synthases; Region: cysKM; TIGR01136 994484013232 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 994484013233 dimer interface [polypeptide binding]; other site 994484013234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013235 catalytic residue [active] 994484013236 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 994484013237 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484013238 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 trans-...; Region: HisKA; cd00082 994484013239 dimer interface [polypeptide binding]; other site 994484013240 phosphorylation site [posttranslational modification] 994484013241 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 994484013242 ATP binding site [chemical binding]; other site 994484013243 Mg2+ binding site [ion binding]; other site 994484013244 G-X-G motif; other site 994484013245 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 994484013246 active site 994484013247 phosphorylation site [posttranslational modification] 994484013248 intermolecular recognition site; other site 994484013249 dimerization interface [polypeptide binding]; other site 994484013250 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 994484013251 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484013252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484013253 META domain; Region: META; cl01245 994484013254 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...; Region: TlpA_like_family; cd02966 994484013255 catalytic residues [active] 994484013256 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 994484013257 catalytic residues [active] 994484013258 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484013259 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 994484013260 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 994484013261 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 994484013262 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...; Region: Alpha_ANH_like_II; cd01993 994484013263 Ligand Binding Site [chemical binding]; other site 994484013264 Yip1 domain; Region: Yip1; cl12048 994484013265 SprT homologues; Region: SprT; cl01182 994484013266 SprT-like family; Region: SprT-like; pfam10263 994484013267 CoA-transferase family III; Region: CoA_transf_3; cl00778 994484013268 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484013269 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484013270 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484013271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013272 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 trans-...; Region: HisKA; cl00080 994484013273 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 994484013274 ATP binding site [chemical binding]; other site 994484013275 Mg2+ binding site [ion binding]; other site 994484013276 G-X-G motif; other site 994484013277 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 994484013278 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 994484013279 active site 994484013280 phosphorylation site [posttranslational modification] 994484013281 intermolecular recognition site; other site 994484013282 dimerization interface [polypeptide binding]; other site 994484013283 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...; Region: trans_reg_C; cd00383 994484013284 DNA binding site [nucleotide binding] 994484013285 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 994484013286 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 994484013287 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 994484013288 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 994484013289 sensor protein RstB; Provisional; Region: PRK10604 994484013290 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484013291 dimerization interface [polypeptide binding]; other site 994484013292 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 trans-...; Region: HisKA; cd00082 994484013293 dimer interface [polypeptide binding]; other site 994484013294 phosphorylation site [posttranslational modification] 994484013295 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 994484013296 ATP binding site [chemical binding]; other site 994484013297 Mg2+ binding site [ion binding]; other site 994484013298 G-X-G motif; other site 994484013299 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 994484013300 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 994484013301 active site 994484013302 phosphorylation site [posttranslational modification] 994484013303 intermolecular recognition site; other site 994484013304 dimerization interface [polypeptide binding]; other site 994484013305 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...; Region: trans_reg_C; cd00383 994484013306 DNA binding site [nucleotide binding] 994484013307 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 994484013308 ATP cone domain; Region: ATP-cone; pfam03477 994484013309 ATP cone domain; Region: ATP-cone; pfam03477 994484013310 Class I ribonucleotide reductase; Region: RNR_I; cd01679 994484013311 active site 994484013312 dimer interface [polypeptide binding]; other site 994484013313 catalytic residues [active] 994484013314 effector binding site; other site 994484013315 R2 peptide binding site; other site 994484013316 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 994484013317 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484013318 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 994484013319 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484013320 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 994484013321 Flagellar hook capping protein; Region: FlgD; cl04347 994484013322 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 994484013323 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484013324 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 994484013325 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 994484013326 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 994484013327 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 994484013328 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484013329 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; cl12011 994484013330 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484013331 Response regulator receiver domain; Region: Response_reg; pfam00072 994484013332 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 994484013333 active site 994484013334 phosphorylation site [posttranslational modification] 994484013335 intermolecular recognition site; other site 994484013336 dimerization interface [polypeptide binding]; other site 994484013337 SAF domain; Region: SAF; cl00555 994484013338 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 994484013339 FlgN protein; Region: FlgN; cl09176 994484013340 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 994484013341 PilZ domain; Region: PilZ; cl01260 994484013342 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 994484013343 putative substrate translocation pore; other site 994484013344 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484013345 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484013346 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484013347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484013348 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 994484013349 ATP binding site [chemical binding]; other site 994484013350 Mg2+ binding site [ion binding]; other site 994484013351 G-X-G motif; other site 994484013352 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 994484013353 Response regulator receiver domain; Region: Response_reg; pfam00072 994484013354 active site 994484013355 phosphorylation site [posttranslational modification] 994484013356 intermolecular recognition site; other site 994484013357 dimerization interface [polypeptide binding]; other site 994484013358 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 994484013359 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 994484013360 binding surface 994484013361 TPR motif; other site 994484013362 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 994484013363 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 994484013364 haemagglutination activity domain; Region: Haemagg_act; cl05436 994484013365 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 994484013366 RTX toxin acyltransferase family; Region: HlyC; cl01131 994484013367 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 994484013368 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 994484013369 Surface antigen; Region: Bac_surface_Ag; cl03097 994484013370 Arc-like DNA binding domain; Region: Arc; pfam03869 994484013371 Cupin domain; Region: Cupin_2; cl09118 994484013372 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484013373 LysE type translocator; Region: LysE; cl00565 994484013374 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 994484013375 MgtE intracellular N domain; Region: MgtE_N; cl15244 994484013376 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 994484013377 Divalent cation transporter; Region: MgtE; cl00786 994484013378 Global regulator protein family; Region: CsrA; cl00670 994484013379 aspartate kinase; Reviewed; Region: PRK06635 994484013380 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 994484013381 putative nucleotide binding site [chemical binding]; other site 994484013382 putative catalytic residues [active] 994484013383 putative Mg ion binding site [ion binding]; other site 994484013384 putative aspartate binding site [chemical binding]; other site 994484013385 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 994484013386 putative allosteric regulatory site; other site 994484013387 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 994484013388 putative allosteric regulatory residue; other site 994484013389 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 994484013390 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...; Region: AlaRS_core; cd00673 994484013391 motif 1; other site 994484013392 active site 994484013393 motif 2; other site 994484013394 motif 3; other site 994484013395 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 994484013396 DHHA1 domain; Region: DHHA1; pfam02272 994484013397 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 994484013398 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 994484013399 tetramer interface [polypeptide binding]; other site 994484013400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013401 catalytic residue [active] 994484013402 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 994484013403 active site 994484013404 homopentamer interface [polypeptide binding]; other site 994484013405 dimer interface [polypeptide binding]; other site 994484013406 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 994484013407 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 994484013408 active site 994484013409 Zn-binding site [ion binding]; other site 994484013410 Succinylarginine dihydrolase; Region: AstB; cl01511 994484013411 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484013412 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 994484013413 NAD(P) binding site [chemical binding]; other site 994484013414 catalytic residues [active] 994484013415 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484013416 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 994484013417 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484013418 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 994484013419 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 994484013420 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 994484013421 inhibitor-cofactor binding pocket; inhibition site 994484013422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013423 catalytic residue [active] 994484013424 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484013425 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484013426 conserved cys residue [active] 994484013427 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013428 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013429 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484013430 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484013431 Walker A/P-loop; other site 994484013432 ATP binding site [chemical binding]; other site 994484013433 Q-loop/lid; other site 994484013434 ABC transporter signature motif; other site 994484013435 Walker B; other site 994484013436 D-loop; other site 994484013437 H-loop/switch region; other site 994484013438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013439 dimer interface [polypeptide binding]; other site 994484013440 conserved gate region; other site 994484013441 putative PBP binding loops; other site 994484013442 ABC-ATPase subunit interface; other site 994484013443 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484013444 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013445 dimer interface [polypeptide binding]; other site 994484013446 conserved gate region; other site 994484013447 putative PBP binding loops; other site 994484013448 ABC-ATPase subunit interface; other site 994484013449 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484013450 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...; Region: PBPb; cd00134 994484013451 substrate binding pocket [chemical binding]; other site 994484013452 membrane-bound complex binding site; other site 994484013453 hinge residues; other site 994484013454 acetyl-CoA synthetase; Provisional; Region: PRK00174 994484013455 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 994484013456 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484013457 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484013458 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 994484013459 dimer interface [polypeptide binding]; other site 994484013460 putative radical transfer pathway; other site 994484013461 diiron center [ion binding]; other site 994484013462 tyrosyl radical; other site 994484013463 LysE type translocator; Region: LysE; cl00565 994484013464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484013465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484013466 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 994484013467 dimerization interface [polypeptide binding]; other site 994484013468 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 994484013469 Cupin domain; Region: Cupin_2; cl09118 994484013470 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484013471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013472 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484013473 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484013474 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484013475 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484013476 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 994484013477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484013478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484013479 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 994484013480 dimerization interface [polypeptide binding]; other site 994484013481 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484013482 conserved cys residue [active] 994484013483 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484013484 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 994484013485 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 994484013486 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 994484013487 active site 994484013488 catalytic site [active] 994484013489 metal binding site [ion binding]; metal-binding site 994484013490 30S ribosomal protein S5P; Reviewed; Region: rps5p; PRK04044 994484013491 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484013492 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 994484013493 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 994484013494 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484013495 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484013496 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484013497 major facilitator superfamily transporter; Provisional; Region: PRK05122 994484013498 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 994484013499 putative substrate translocation pore; other site 994484013500 RF-1 domain; Region: RF-1; cl02875 994484013501 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484013502 Amino acid permease; Region: AA_permease; pfam00324 994484013503 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 994484013504 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 994484013505 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 994484013506 RNA binding surface [nucleotide binding]; other site 994484013507 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 994484013508 probable active site [active] 994484013509 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 994484013510 ScpA/B protein; Region: ScpA_ScpB; cl00598 994484013511 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 994484013512 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 994484013513 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 994484013514 Intracellular septation protein A; Region: IspA; cl01098 994484013515 YCII-related domain; Region: YCII; cl00999 994484013516 proteasome-activating nucleotidase; Provisional; Region: PRK03992 994484013517 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484013518 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 994484013519 active site 994484013520 phosphorylation site [posttranslational modification] 994484013521 intermolecular recognition site; other site 994484013522 dimerization interface [polypeptide binding]; other site 994484013523 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...; Region: trans_reg_C; cd00383 994484013524 DNA binding site [nucleotide binding] 994484013525 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 994484013526 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484013527 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 trans-...; Region: HisKA; cl00080 994484013528 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 994484013529 ATP binding site [chemical binding]; other site 994484013530 Mg2+ binding site [ion binding]; other site 994484013531 G-X-G motif; other site 994484013532 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 994484013533 Imelysin; Region: Peptidase_M75; cl09159 994484013534 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 994484013535 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484013536 multidrug efflux protein; Reviewed; Region: PRK09579 994484013537 Protein export membrane protein; Region: SecD_SecF; cl14618 994484013538 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484013539 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 994484013540 S-adenosylmethionine binding site [chemical binding]; other site 994484013541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 994484013542 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 trans-...; Region: HisKA; cd00082 994484013543 dimer interface [polypeptide binding]; other site 994484013544 phosphorylation site [posttranslational modification] 994484013545 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 994484013546 ATP binding site [chemical binding]; other site 994484013547 Mg2+ binding site [ion binding]; other site 994484013548 G-X-G motif; other site 994484013549 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484013550 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 994484013551 active site 994484013552 phosphorylation site [posttranslational modification] 994484013553 intermolecular recognition site; other site 994484013554 dimerization interface [polypeptide binding]; other site 994484013555 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...; Region: trans_reg_C; cd00383 994484013556 DNA binding site [nucleotide binding] 994484013557 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 994484013558 active site 994484013559 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 994484013560 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 994484013561 ring oligomerisation interface [polypeptide binding]; other site 994484013562 ATP/Mg binding site [chemical binding]; other site 994484013563 stacking interactions; other site 994484013564 hinge regions; other site 994484013565 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...; Region: cpn10; cd00320 994484013566 oligomerisation interface [polypeptide binding]; other site 994484013567 mobile loop; other site 994484013568 roof hairpin; other site 994484013569 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 994484013570 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 994484013571 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484013572 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 994484013573 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484013574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484013575 NAD(P) binding site [chemical binding]; other site 994484013576 active site 994484013577 antiporter inner membrane protein; Provisional; Region: PRK11670 994484013578 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 994484013579 Walker A motif; other site 994484013580 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 994484013581 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 994484013582 active site 994484013583 HIGH motif; other site 994484013584 KMSKS motif; other site 994484013585 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 994484013586 tRNA binding surface [nucleotide binding]; other site 994484013587 anticodon binding site; other site 994484013588 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 994484013589 dimer interface [polypeptide binding]; other site 994484013590 putative tRNA-binding site [nucleotide binding]; other site 994484013591 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 994484013592 ferredoxin; Provisional; Region: PRK08764 994484013593 Putative Fe-S cluster; Region: FeS; pfam04060 994484013594 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 994484013595 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 994484013596 FMN-binding domain; Region: FMN_bind; cl01081 994484013597 endonuclease III; Provisional; Region: PRK10702 994484013598 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 994484013599 minor groove reading motif; other site 994484013600 helix-hairpin-helix signature motif; other site 994484013601 substrate binding pocket [chemical binding]; other site 994484013602 active site 994484013603 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 994484013604 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484013605 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 994484013606 active site 994484013607 phosphorylation site [posttranslational modification] 994484013608 intermolecular recognition site; other site 994484013609 dimerization interface [polypeptide binding]; other site 994484013610 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...; Region: LuxR_C_like; cd06170 994484013611 DNA binding residues [nucleotide binding] 994484013612 dimerization interface [polypeptide binding]; other site 994484013613 argininosuccinate synthase; Provisional; Region: PLN00200 994484013614 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 994484013615 ANP binding site [chemical binding]; other site 994484013616 Substrate Binding Site II [chemical binding]; other site 994484013617 Substrate Binding Site I [chemical binding]; other site 994484013618 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484013619 ligand binding site [chemical binding]; other site 994484013620 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 994484013621 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 994484013622 active site 994484013623 substrate binding pocket [chemical binding]; other site 994484013624 dimer interface [polypeptide binding]; other site 994484013625 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 994484013626 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 994484013627 dimer interface [polypeptide binding]; other site 994484013628 putative active site [active] 994484013629 putative substrate binding site [chemical binding]; other site 994484013630 catalytic site [active] 994484013631 peroxidase; Provisional; Region: PRK15000 994484013632 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 994484013633 dimer interface [polypeptide binding]; other site 994484013634 decamer (pentamer of dimers) interface [polypeptide binding]; other site 994484013635 catalytic triad [active] 994484013636 peroxidatic and resolving cysteines [active] 994484013637 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 994484013638 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 994484013639 Ferritin-like domain; Region: Ferritin; pfam00210 994484013640 heme binding site [chemical binding]; other site 994484013641 ferroxidase pore; other site 994484013642 ferroxidase diiron center [ion binding]; other site 994484013643 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 994484013644 putative GSH binding site [chemical binding]; other site 994484013645 catalytic residues [active] 994484013646 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 994484013647 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 994484013648 putative [Fe4-S4] binding site [ion binding]; other site 994484013649 putative molybdopterin cofactor binding site [chemical binding]; other site 994484013650 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 994484013651 putative molybdopterin cofactor binding site; other site 994484013652 ornithine carbamoyltransferase; Provisional; Region: PRK00779 994484013653 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 994484013654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484013655 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484013656 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 994484013657 Walker A/P-loop; other site 994484013658 ATP binding site [chemical binding]; other site 994484013659 Q-loop/lid; other site 994484013660 ABC transporter signature motif; other site 994484013661 Walker B; other site 994484013662 D-loop; other site 994484013663 H-loop/switch region; other site 994484013664 TOBE domain; Region: TOBE_2; cl01440 994484013665 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 994484013666 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 994484013667 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS); Region: YbaK_deacylase; cd00002 994484013668 putative deacylase active site [active] 994484013669 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-...; Region: MIP; cd00333 994484013670 amphipathic channel; other site 994484013671 Asn-Pro-Ala signature motifs; other site 994484013672 glycerol kinase; Provisional; Region: glpK; PRK00047 994484013673 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 994484013674 N- and C-terminal domain interface [polypeptide binding]; other site 994484013675 active site 994484013676 MgATP binding site [chemical binding]; other site 994484013677 catalytic site [active] 994484013678 metal binding site [ion binding]; metal-binding site 994484013679 glycerol binding site [chemical binding]; other site 994484013680 homotetramer interface [polypeptide binding]; other site 994484013681 homodimer interface [polypeptide binding]; other site 994484013682 protein IIAGlc interface [polypeptide binding]; other site 994484013683 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 994484013684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484013685 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 994484013686 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 994484013687 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484013688 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484013689 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...; Region: PBPb; cd00134 994484013690 substrate binding pocket [chemical binding]; other site 994484013691 membrane-bound complex binding site; other site 994484013692 hinge residues; other site 994484013693 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013694 dimer interface [polypeptide binding]; other site 994484013695 conserved gate region; other site 994484013696 putative PBP binding loops; other site 994484013697 ABC-ATPase subunit interface; other site 994484013698 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484013699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013700 dimer interface [polypeptide binding]; other site 994484013701 conserved gate region; other site 994484013702 putative PBP binding loops; other site 994484013703 ABC-ATPase subunit interface; other site 994484013704 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484013705 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484013706 Walker A/P-loop; other site 994484013707 ATP binding site [chemical binding]; other site 994484013708 Q-loop/lid; other site 994484013709 ABC transporter signature motif; other site 994484013710 Walker B; other site 994484013711 D-loop; other site 994484013712 H-loop/switch region; other site 994484013713 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484013714 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 trans-...; Region: HisKA; cl00080 994484013715 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 994484013716 Mg2+ binding site [ion binding]; other site 994484013717 G-X-G motif; other site 994484013718 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484013719 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 994484013720 active site 994484013721 phosphorylation site [posttranslational modification] 994484013722 intermolecular recognition site; other site 994484013723 dimerization interface [polypeptide binding]; other site 994484013724 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...; Region: AAA; cd00009 994484013725 Walker A motif; other site 994484013726 ATP binding site [chemical binding]; other site 994484013727 Walker B motif; other site 994484013728 arginine finger; other site 994484013729 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484013730 GlpM protein; Region: GlpM; cl01212 994484013731 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 994484013732 NAD binding site [chemical binding]; other site 994484013733 putative active site [active] 994484013734 substrate binding site [chemical binding]; other site 994484013735 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484013736 transcriptional regulator; Provisional; Region: PRK10632 994484013737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484013738 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 994484013739 putative effector binding pocket; other site 994484013740 dimerization interface [polypeptide binding]; other site 994484013741 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 994484013742 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 994484013743 putative aromatic amino acid binding site; other site 994484013744 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 994484013745 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...; Region: AAA; cd00009 994484013746 Walker A motif; other site 994484013747 ATP binding site [chemical binding]; other site 994484013748 Walker B motif; other site 994484013749 arginine finger; other site 994484013750 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 L-...; Region: GCS_H; cd06848 994484013751 lipoyl attachment site [posttranslational modification]; other site 994484013752 glycine dehydrogenase; Provisional; Region: PRK05367 994484013753 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...; Region: GDC-P; cd00613 994484013754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013755 tetramer interface [polypeptide binding]; other site 994484013756 catalytic residue [active] 994484013757 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...; Region: GDC-P; cd00613 994484013758 tetramer interface [polypeptide binding]; other site 994484013759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013760 catalytic residue [active] 994484013761 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 994484013762 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 994484013763 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 994484013764 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 994484013765 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484013766 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 994484013767 DNA-binding site [nucleotide binding]; DNA binding site 994484013768 RNA-binding motif; other site 994484013769 RDD family; Region: RDD; cl00746 994484013770 Quinolinate synthetase A protein; Region: NadA; cl00420 994484013771 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 994484013772 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484013773 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484013774 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484013775 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 994484013776 Copper resistance protein CopC; Region: CopC; cl01012 994484013777 Copper resistance protein D; Region: CopD; cl00563 994484013778 putative cyanate transporter; Provisional; Region: cynX; PRK09705 994484013779 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 994484013780 putative substrate translocation pore; other site 994484013781 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 994484013782 Ligand Binding Site [chemical binding]; other site 994484013783 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 994484013784 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 994484013785 FeS/SAM binding site; other site 994484013786 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 994484013787 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484013788 ligand binding site [chemical binding]; other site 994484013789 translocation protein TolB; Provisional; Region: tolB; PRK00178 994484013790 TolB amino-terminal domain; Region: TolB_N; pfam04052 994484013791 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 994484013792 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 994484013793 TolA protein; Region: tolA_full; TIGR02794 994484013794 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 994484013795 Gram-negative bacterial tonB protein; Region: TonB; cl10048 994484013796 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 994484013797 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484013798 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 994484013799 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...; Region: 4HBT; cd00586 994484013800 active site 994484013801 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 994484013802 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...; Region: AAA; cd00009 994484013803 Walker A motif; other site 994484013804 ATP binding site [chemical binding]; other site 994484013805 Walker B motif; other site 994484013806 arginine finger; other site 994484013807 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 994484013808 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 994484013809 RuvA N terminal domain; Region: RuvA_N; pfam01330 994484013810 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 994484013811 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 994484013812 active site 994484013813 putative DNA-binding cleft [nucleotide binding]; other site 994484013814 dimer interface [polypeptide binding]; other site 994484013815 Domain of unknown function DUF28; Region: DUF28; cl00361 994484013816 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 994484013817 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 994484013818 dimer interface [polypeptide binding]; other site 994484013819 anticodon binding site; other site 994484013820 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 994484013821 homodimer interface [polypeptide binding]; other site 994484013822 motif 1; other site 994484013823 active site 994484013824 motif 2; other site 994484013825 GAD domain; Region: GAD; pfam02938 994484013826 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 994484013827 active site 994484013828 motif 3; other site 994484013829 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 994484013830 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 994484013831 Ferritin-like domain; Region: Ferritin; pfam00210 994484013832 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 994484013833 dimerization interface [polypeptide binding]; other site 994484013834 DPS ferroxidase diiron center [ion binding]; other site 994484013835 ion pore; other site 994484013836 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 994484013837 DNA-binding site [nucleotide binding]; DNA binding site 994484013838 RNA-binding motif; other site 994484013839 SlyX; Region: SlyX; cl01090 994484013840 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...; Region: HIT_like; cl00228 994484013841 outer membrane porin, OprD family; Region: OprD; pfam03573 994484013842 mechanosensitive channel MscS; Provisional; Region: PRK10334 994484013843 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484013844 Protein of unknown function (DUF520); Region: DUF520; cl00723 994484013845 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 994484013846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484013847 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 994484013848 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484013849 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484013850 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 994484013851 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 994484013852 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 trans-...; Region: HisKA; cd00082 994484013853 dimer interface [polypeptide binding]; other site 994484013854 phosphorylation site [posttranslational modification] 994484013855 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 994484013856 ATP binding site [chemical binding]; other site 994484013857 Mg2+ binding site [ion binding]; other site 994484013858 G-X-G motif; other site 994484013859 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 994484013860 hypothetical protein; Provisional; Region: PRK08999 994484013861 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 994484013862 active site 994484013863 8-oxo-dGMP binding site [chemical binding]; other site 994484013864 nudix motif; other site 994484013865 metal binding site [ion binding]; metal-binding site 994484013866 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- (beta-...; Region: TMP_TenI; cd00564 994484013867 thiamine phosphate binding site [chemical binding]; other site 994484013868 active site 994484013869 pyrophosphate binding site [ion binding]; other site 994484013870 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH)...; Region: GST_N_1; cd03043 994484013871 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484013872 putative C-terminal domain interface [polypeptide binding]; other site 994484013873 putative GSH binding site (G-site) [chemical binding]; other site 994484013874 putative dimer interface [polypeptide binding]; other site 994484013875 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 994484013876 putative substrate binding pocket (H-site) [chemical binding]; other site 994484013877 putative N-terminal domain interface [polypeptide binding]; other site 994484013878 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...; Region: OAT; cd02152 994484013879 heterotetramer interface [polypeptide binding]; other site 994484013880 active site pocket [active] 994484013881 cleavage site 994484013882 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 994484013883 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484013884 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 994484013885 SEC-C motif; Region: SEC-C; cl12132 994484013886 Protein of unknown function (DUF721); Region: DUF721; cl02324 994484013887 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 994484013888 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484013889 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_2; cd03814 994484013890 Predicted deacetylase [General function prediction only]; Region: COG3233 994484013891 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 994484013892 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 994484013893 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484013894 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484013895 putative active site [active] 994484013896 putative substrate binding site [chemical binding]; other site 994484013897 putative cosubstrate binding site; other site 994484013898 catalytic site [active] 994484013899 exonuclease I; Provisional; Region: sbcB; PRK11779 994484013900 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 994484013901 active site 994484013902 substrate binding site [chemical binding]; other site 994484013903 catalytic site [active] 994484013904 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 994484013905 RDD family; Region: RDD; cl00746 994484013906 Integral membrane protein DUF95; Region: DUF95; cl00572 994484013907 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484013908 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...; Region: AAA; cd00009 994484013909 Walker A motif; other site 994484013910 ATP binding site [chemical binding]; other site 994484013911 Walker B motif; other site 994484013912 arginine finger; other site 994484013913 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 994484013914 Protein of unknown function DUF58; Region: DUF58; pfam01882 994484013915 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 994484013916 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; cl04143 994484013917 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 994484013918 PilZ domain; Region: PilZ; cl01260 994484013919 pyruvate kinase; Provisional; Region: PRK05826 994484013920 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 994484013921 domain interfaces; other site 994484013922 active site 994484013923 enoyl-CoA hydratase; Provisional; Region: PRK06688 994484013924 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 994484013925 substrate binding site [chemical binding]; other site 994484013926 oxyanion hole (OAH) forming residues; other site 994484013927 trimer interface [polypeptide binding]; other site 994484013928 hypothetical protein; Provisional; Region: PRK05713 994484013929 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 994484013930 catalytic loop [active] 994484013931 iron binding site [ion binding]; other site 994484013932 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 994484013933 FAD binding pocket [chemical binding]; other site 994484013934 FAD binding motif [chemical binding]; other site 994484013935 phosphate binding motif [ion binding]; other site 994484013936 beta-alpha-beta structure motif; other site 994484013937 NAD binding pocket [chemical binding]; other site 994484013938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484013939 metal binding site [ion binding]; metal-binding site 994484013940 active site 994484013941 I-site; other site 994484013942 putative fumarate hydratase; Provisional; Region: PRK15392 994484013943 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 994484013944 Fumarase C-terminus; Region: Fumerase_C; cl00795 994484013945 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 994484013946 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 994484013947 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 994484013948 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484013949 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484013950 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484013951 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 trans-...; Region: HisKA; cd00082 994484013952 dimer interface [polypeptide binding]; other site 994484013953 phosphorylation site [posttranslational modification] 994484013954 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 994484013955 ATP binding site [chemical binding]; other site 994484013956 Mg2+ binding site [ion binding]; other site 994484013957 G-X-G motif; other site 994484013958 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484013959 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 994484013960 active site 994484013961 phosphorylation site [posttranslational modification] 994484013962 intermolecular recognition site; other site 994484013963 dimerization interface [polypeptide binding]; other site 994484013964 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...; Region: AAA; cd00009 994484013965 Walker A motif; other site 994484013966 ATP binding site [chemical binding]; other site 994484013967 Walker B motif; other site 994484013968 arginine finger; other site 994484013969 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484013970 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 994484013971 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 994484013972 putative substrate translocation pore; other site 994484013973 Flavin Reductases; Region: FlaRed; cl00801 994484013974 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484013975 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484013976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013977 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484013978 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 994484013979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484013980 Walker A/P-loop; other site 994484013981 ATP binding site [chemical binding]; other site 994484013982 Q-loop/lid; other site 994484013983 ABC transporter signature motif; other site 994484013984 Walker B; other site 994484013985 D-loop; other site 994484013986 H-loop/switch region; other site 994484013987 TOBE domain; Region: TOBE_2; cl01440 994484013988 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484013989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013990 dimer interface [polypeptide binding]; other site 994484013991 conserved gate region; other site 994484013992 putative PBP binding loops; other site 994484013993 ABC-ATPase subunit interface; other site 994484013994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484013995 dimer interface [polypeptide binding]; other site 994484013996 ABC-ATPase subunit interface; other site 994484013997 putative PBP binding loops; other site 994484013998 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 994484013999 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 994484014000 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484014001 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 994484014002 NAD(P) binding site [chemical binding]; other site 994484014003 catalytic residues [active] 994484014004 catalytic residues [active] 994484014005 hypothetical protein; Provisional; Region: PRK07524 994484014006 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484014007 PYR/PP interface [polypeptide binding]; other site 994484014008 dimer interface [polypeptide binding]; other site 994484014009 TPP binding site [chemical binding]; other site 994484014010 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484014011 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...; Region: TPP_enzymes; cd00568 994484014012 TPP-binding site [chemical binding]; other site 994484014013 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484014014 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484014015 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 994484014016 substrate binding pocket [chemical binding]; other site 994484014017 dimerization interface [polypeptide binding]; other site 994484014018 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484014019 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 994484014020 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 994484014021 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 994484014022 THF binding site; other site 994484014023 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 994484014024 substrate binding site [chemical binding]; other site 994484014025 THF binding site; other site 994484014026 zinc-binding site [ion binding]; other site 994484014027 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 994484014028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484014029 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 994484014030 putative dimerization interface [polypeptide binding]; other site 994484014031 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484014032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484014033 LysE type translocator; Region: LysE; cl00565 994484014034 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 994484014035 nudix motif; other site 994484014036 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 994484014037 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 994484014038 active site 994484014039 phosphorylation site [posttranslational modification] 994484014040 intermolecular recognition site; other site 994484014041 dimerization interface [polypeptide binding]; other site 994484014042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484014043 Zn2+ binding site [ion binding]; other site 994484014044 Mg2+ binding site [ion binding]; other site 994484014045 Response regulator receiver domain; Region: Response_reg; pfam00072 994484014046 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 994484014047 active site 994484014048 phosphorylation site [posttranslational modification] 994484014049 intermolecular recognition site; other site 994484014050 dimerization interface [polypeptide binding]; other site 994484014051 hypothetical protein; Provisional; Region: PRK13560 994484014052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484014053 metal binding site [ion binding]; metal-binding site 994484014054 active site 994484014055 I-site; other site 994484014056 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 994484014057 Response regulator receiver domain; Region: Response_reg; pfam00072 994484014058 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 994484014059 active site 994484014060 phosphorylation site [posttranslational modification] 994484014061 intermolecular recognition site; other site 994484014062 dimerization interface [polypeptide binding]; other site 994484014063 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484014064 metal binding site [ion binding]; metal-binding site 994484014065 active site 994484014066 I-site; other site 994484014067 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 994484014068 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 994484014069 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 994484014070 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484014071 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 994484014072 ATP binding site [chemical binding]; other site 994484014073 G-X-G motif; other site 994484014074 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 994484014075 active site 994484014076 phosphorylation site [posttranslational modification] 994484014077 intermolecular recognition site; other site 994484014078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484014079 dimerization interface [polypeptide binding]; other site 994484014080 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 trans-...; Region: HisKA; cl00080 994484014081 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 994484014082 ATP binding site [chemical binding]; other site 994484014083 Mg2+ binding site [ion binding]; other site 994484014084 G-X-G motif; other site 994484014085 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 994484014086 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...; Region: GltS_FMN; cd02808 994484014087 active site 994484014088 FMN binding site [chemical binding]; other site 994484014089 substrate binding site [chemical binding]; other site 994484014090 3Fe-4S cluster binding site [ion binding]; other site 994484014091 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 994484014092 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484014093 ethanolamine permease; Region: 2A0305; TIGR00908 994484014094 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 994484014095 Transglycosylase; Region: Transgly; cl07896 994484014096 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 994484014097 putative fimbrial protein TcfA; Provisional; Region: PRK15308 994484014098 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 994484014099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484014100 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 994484014101 FAD binding pocket [chemical binding]; other site 994484014102 FAD binding motif [chemical binding]; other site 994484014103 phosphate binding motif [ion binding]; other site 994484014104 NAD binding pocket [chemical binding]; other site 994484014105 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 994484014106 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 994484014107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014108 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484014109 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 994484014110 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 994484014111 Trp docking motif; other site 994484014112 active site 994484014113 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 994484014114 'Velcro' closure; other site 994484014115 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 994484014116 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 994484014117 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 994484014118 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 994484014119 trimer interface [polypeptide binding]; other site 994484014120 putative metal binding site [ion binding]; other site 994484014121 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 994484014122 putative active site [active] 994484014123 putative CoA binding site [chemical binding]; other site 994484014124 nudix motif; other site 994484014125 metal binding site [ion binding]; metal-binding site 994484014126 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_4; cd04511 994484014127 nudix motif; other site 994484014128 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 994484014129 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 994484014130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484014131 DNA-binding site [nucleotide binding]; DNA binding site 994484014132 UTRA domain; Region: UTRA; cl01230 994484014133 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 994484014134 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 994484014135 active site 994484014136 dimer interface [polypeptide binding]; other site 994484014137 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 994484014138 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 994484014139 dimer interface [polypeptide binding]; other site 994484014140 active site 994484014141 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 994484014142 dimer interface [polypeptide binding]; other site 994484014143 active site 994484014144 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 994484014145 HPr interaction site; other site 994484014146 glycerol kinase (GK) interaction site [polypeptide binding]; other site 994484014147 active site 994484014148 phosphorylation site [posttranslational modification] 994484014149 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 994484014150 dimerization domain swap beta strand [polypeptide binding]; other site 994484014151 regulatory protein interface [polypeptide binding]; other site 994484014152 active site 994484014153 regulatory phosphorylation site [posttranslational modification]; other site 994484014154 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 994484014155 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484014156 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 994484014157 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 994484014158 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 994484014159 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 994484014160 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 994484014161 active site turn [active] 994484014162 phosphorylation site [posttranslational modification] 994484014163 Transposase, Mutator family; Region: Transposase_mut; pfam00872 994484014164 MULE transposase domain; Region: MULE; pfam10551 994484014165 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 994484014166 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 994484014167 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 994484014168 dimerization interface [polypeptide binding]; other site 994484014169 ATP binding site [chemical binding]; other site 994484014170 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 994484014171 dimerization interface [polypeptide binding]; other site 994484014172 ATP binding site [chemical binding]; other site 994484014173 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 994484014174 putative active site [active] 994484014175 catalytic triad [active] 994484014176 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 994484014177 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...; Region: PBPb; cd00134 994484014178 substrate binding pocket [chemical binding]; other site 994484014179 membrane-bound complex binding site; other site 994484014180 hinge residues; other site 994484014181 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 994484014182 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484014183 catalytic residue [active] 994484014184 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 994484014185 active site 994484014186 hydrophilic channel; other site 994484014187 dimerization interface [polypeptide binding]; other site 994484014188 catalytic residues [active] 994484014189 active site lid [active] 994484014190 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 994484014191 Recombination protein O N terminal; Region: RecO_N; pfam11967 994484014192 Recombination protein O C terminal; Region: RecO_C; pfam02565 994484014193 GTPase Era; Reviewed; Region: era; PRK00089 994484014194 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 994484014195 G1 box; other site 994484014196 GTP/Mg2+ binding site [chemical binding]; other site 994484014197 Switch I region; other site 994484014198 G2 box; other site 994484014199 Switch II region; other site 994484014200 G3 box; other site 994484014201 G4 box; other site 994484014202 G5 box; other site 994484014203 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 994484014204 ribonuclease III; Reviewed; Region: rnc; PRK00102 994484014205 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 post-...; Region: RIBOc; cd00593 994484014206 dimerization interface [polypeptide binding]; other site 994484014207 active site 994484014208 metal binding site [ion binding]; metal-binding site 994484014209 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...; Region: DSRM; cd00048 994484014210 dsRNA binding site [nucleotide binding]; other site 994484014211 signal peptidase I; Provisional; Region: PRK10861 994484014212 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 994484014213 Catalytic site [active] 994484014214 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)...; Region: Peptidase_S24_S26; cl10465 994484014215 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 994484014216 GTP-binding protein LepA; Provisional; Region: PRK05433 994484014217 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 994484014218 G1 box; other site 994484014219 putative GEF interaction site [polypeptide binding]; other site 994484014220 GTP/Mg2+ binding site [chemical binding]; other site 994484014221 Switch I region; other site 994484014222 G2 box; other site 994484014223 G3 box; other site 994484014224 Switch II region; other site 994484014225 G4 box; other site 994484014226 G5 box; other site 994484014227 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-...; Region: lepA_II; cd03699 994484014228 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 994484014229 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 994484014230 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 994484014231 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 994484014232 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 994484014233 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 994484014234 multifunctional aminopeptidase A; Provisional; Region: PRK00913 994484014235 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...; Region: Peptidase_M17; cd00433 994484014236 interface (dimer of trimers) [polypeptide binding]; other site 994484014237 Substrate-binding/catalytic site; other site 994484014238 Zn-binding sites [ion binding]; other site 994484014239 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 994484014240 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 994484014241 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 994484014242 HIGH motif; other site 994484014243 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 994484014244 active site 994484014245 KMSKS motif; other site 994484014246 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 994484014247 tRNA binding surface [nucleotide binding]; other site 994484014248 anticodon binding site; other site 994484014249 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 994484014250 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; cl12011 994484014251 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 994484014252 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 higher-...; Region: HU_IHF; cd00591 994484014253 IHF - DNA interface [nucleotide binding]; other site 994484014254 IHF dimer interface [polypeptide binding]; other site 994484014255 Nucleoid-associated protein [General function prediction only]; Region: COG3081 994484014256 nucleoid-associated protein NdpA; Validated; Region: PRK00378 994484014257 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...; Region: NrdH; cd02976 994484014258 catalytic residues [active] 994484014259 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484014260 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 994484014261 C-terminal domain interface [polypeptide binding]; other site 994484014262 GSH binding site (G-site) [chemical binding]; other site 994484014263 dimer interface [polypeptide binding]; other site 994484014264 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 994484014265 N-terminal domain interface [polypeptide binding]; other site 994484014266 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 994484014267 GIY-YIG motif/motif A; other site 994484014268 putative active site [active] 994484014269 putative metal binding site [ion binding]; other site 994484014270 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 994484014271 cyanate transporter; Region: CynX; TIGR00896 994484014272 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 994484014273 putative substrate translocation pore; other site 994484014274 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484014275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484014276 DNA-binding site [nucleotide binding]; DNA binding site 994484014277 FCD domain; Region: FCD; cl11656 994484014278 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 994484014279 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 994484014280 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484014281 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484014282 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484014283 Walker A/P-loop; other site 994484014284 ATP binding site [chemical binding]; other site 994484014285 Q-loop/lid; other site 994484014286 ABC transporter signature motif; other site 994484014287 Walker B; other site 994484014288 D-loop; other site 994484014289 H-loop/switch region; other site 994484014290 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484014291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484014292 dimer interface [polypeptide binding]; other site 994484014293 conserved gate region; other site 994484014294 putative PBP binding loops; other site 994484014295 ABC-ATPase subunit interface; other site 994484014296 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 994484014297 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484014298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484014299 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484014300 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...; Region: PBPb; cd00134 994484014301 substrate binding pocket [chemical binding]; other site 994484014302 membrane-bound complex binding site; other site 994484014303 hinge residues; other site 994484014304 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 994484014305 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 994484014306 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 994484014307 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 994484014308 ATP binding site [chemical binding]; other site 994484014309 Mg++ binding site [ion binding]; other site 994484014310 motif III; other site 994484014311 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 994484014312 nucleotide binding region [chemical binding]; other site 994484014313 ATP-binding site [chemical binding]; other site 994484014314 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 994484014315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014316 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484014317 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484014318 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484014319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 994484014320 YheO-like PAS domain; Region: PAS_6; pfam08348 994484014321 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484014322 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...; Region: PBPb; cd00134 994484014323 substrate binding pocket [chemical binding]; other site 994484014324 membrane-bound complex binding site; other site 994484014325 hinge residues; other site 994484014326 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 994484014327 MoaE homodimer interface [polypeptide binding]; other site 994484014328 MoaD interaction [polypeptide binding]; other site 994484014329 active site residues [active] 994484014330 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 994484014331 MoaE interaction surface [polypeptide binding]; other site 994484014332 MoeB interaction surface [polypeptide binding]; other site 994484014333 thiocarboxylated glycine; other site 994484014334 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...; Region: MoaC_PE; cd01420 994484014335 trimer interface [polypeptide binding]; other site 994484014336 dimer interface [polypeptide binding]; other site 994484014337 putative active site [active] 994484014338 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 994484014339 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 994484014340 putative active site [active] 994484014341 PhoH-like protein; Region: PhoH; cl12134 994484014342 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 994484014343 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 994484014344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014345 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484014346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014347 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 994484014348 PilZ domain; Region: PilZ; cl01260 994484014349 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 994484014350 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 994484014351 Domain present in carbohydrate binding proteins and sugar hydrolses; Region: CASH; smart00722 994484014352 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 994484014353 active site 994484014354 MBOAT family; Region: MBOAT; cl00738 994484014355 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 994484014356 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 994484014357 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 994484014358 Substrate binding site [chemical binding]; other site 994484014359 Cupin domain; Region: Cupin_2; cl09118 994484014360 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484014361 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484014362 short chain dehydrogenase; Provisional; Region: PRK05693 994484014363 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 994484014364 NADP binding site [chemical binding]; other site 994484014365 active site 994484014366 steroid binding site; other site 994484014367 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 994484014368 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...; Region: Biotinyl_lipoyl_domains; cl11404 994484014369 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 994484014370 Fusaric acid resistance protein family; Region: FUSC; pfam04632 994484014371 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 994484014372 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 994484014373 NodT family; Region: outer_NodT; TIGR01845 994484014374 Outer membrane efflux protein; Region: OEP; pfam02321 994484014375 Outer membrane efflux protein; Region: OEP; pfam02321 994484014376 transcriptional regulator; Provisional; Region: PRK10632 994484014377 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 994484014378 putative effector binding pocket; other site 994484014379 dimerization interface [polypeptide binding]; other site 994484014380 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 994484014381 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...; Region: Biotinyl_lipoyl_domains; cl11404 994484014382 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 994484014383 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 994484014384 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 994484014385 active site 994484014386 phosphorylation site [posttranslational modification] 994484014387 intermolecular recognition site; other site 994484014388 dimerization interface [polypeptide binding]; other site 994484014389 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...; Region: trans_reg_C; cd00383 994484014390 DNA binding site [nucleotide binding] 994484014391 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484014392 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 trans-...; Region: HisKA; cd00082 994484014393 dimer interface [polypeptide binding]; other site 994484014394 phosphorylation site [posttranslational modification] 994484014395 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 994484014396 ATP binding site [chemical binding]; other site 994484014397 Mg2+ binding site [ion binding]; other site 994484014398 G-X-G motif; other site 994484014399 Cache domain; Region: Cache_1; pfam02743 994484014400 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484014401 metal binding site [ion binding]; metal-binding site 994484014402 active site 994484014403 I-site; other site 994484014404 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 994484014405 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 994484014406 cell division protein FtsZ; Validated; Region: PRK09330 994484014407 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...; Region: FtsZ_type1; cd02201 994484014408 nucleotide binding site [chemical binding]; other site 994484014409 SulA interaction site; other site 994484014410 cell division protein FtsA; Region: ftsA; TIGR01174 994484014411 Cell division protein FtsA; Region: FtsA; cl11496 994484014412 Cell division protein FtsA; Region: FtsA; cl11496 994484014413 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 994484014414 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 994484014415 Cell division protein FtsQ; Region: FtsQ; pfam03799 994484014416 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 994484014417 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 994484014418 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484014419 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 994484014420 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484014421 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484014422 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484014423 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 994484014424 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...; Region: GT1_MurG; cd03785 994484014425 active site 994484014426 homodimer interface [polypeptide binding]; other site 994484014427 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 994484014428 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 994484014429 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484014430 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 994484014431 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 994484014432 Mg++ binding site [ion binding]; other site 994484014433 putative catalytic motif [active] 994484014434 putative substrate binding site [chemical binding]; other site 994484014435 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484014436 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 994484014437 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484014438 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484014439 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 994484014440 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484014441 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484014442 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484014443 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 994484014444 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 994484014445 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 994484014446 Septum formation initiator; Region: DivIC; cl11433 994484014447 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 994484014448 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; cl12011 994484014449 cell division protein MraZ; Reviewed; Region: PRK00326 994484014450 MraZ protein; Region: MraZ; pfam02381 994484014451 MraZ protein; Region: MraZ; pfam02381 994484014452 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 994484014453 Predicted methyltransferases [General function prediction only]; Region: COG0313 994484014454 LppC putative lipoprotein; Region: LppC; pfam04348 994484014455 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 994484014456 putative ligand binding site [chemical binding]; other site 994484014457 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 994484014458 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 994484014459 dimer interface [polypeptide binding]; other site 994484014460 active site 994484014461 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 994484014462 BON domain; Region: BON; cl02771 994484014463 BON domain; Region: BON; cl02771 994484014464 Stringent starvation protein B; Region: SspB; cl01120 994484014465 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 994484014466 stringent starvation protein A; Provisional; Region: sspA; PRK09481 994484014467 C-terminal domain interface [polypeptide binding]; other site 994484014468 putative GSH binding site (G-site) [chemical binding]; other site 994484014469 dimer interface [polypeptide binding]; other site 994484014470 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 994484014471 dimer interface [polypeptide binding]; other site 994484014472 N-terminal domain interface [polypeptide binding]; other site 994484014473 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 994484014474 cytochrome b; Provisional; Region: CYTB; MTH00145 994484014475 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 994484014476 Qi binding site; other site 994484014477 intrachain domain interface; other site 994484014478 interchain domain interface [polypeptide binding]; other site 994484014479 heme bH binding site [chemical binding]; other site 994484014480 heme bL binding site [chemical binding]; other site 994484014481 Qo binding site; other site 994484014482 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 994484014483 interchain domain interface [polypeptide binding]; other site 994484014484 intrachain domain interface; other site 994484014485 Qi binding site; other site 994484014486 Qo binding site; other site 994484014487 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 994484014488 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 994484014489 [2Fe-2S] cluster binding site [ion binding]; other site 994484014490 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 994484014491 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 994484014492 23S rRNA interface [nucleotide binding]; other site 994484014493 L3 interface [polypeptide binding]; other site 994484014494 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 994484014495 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...; Region: Aldo_ket_red; cd06660 994484014496 active site 994484014497 catalytic tetrad [active] 994484014498 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484014499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484014500 active site 994484014501 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484014502 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 994484014503 conserved cys residue [active] 994484014504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014505 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 994484014506 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 994484014507 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 994484014508 active site 994484014509 HIGH motif; other site 994484014510 dimer interface [polypeptide binding]; other site 994484014511 KMSKS motif; other site 994484014512 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 994484014513 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 994484014514 hypothetical protein; Provisional; Region: PRK07482 994484014515 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 994484014516 inhibitor-cofactor binding pocket; inhibition site 994484014517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014518 catalytic residue [active] 994484014519 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484014520 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484014521 tetramerization interface [polypeptide binding]; other site 994484014522 NAD(P) binding site [chemical binding]; other site 994484014523 catalytic residues [active] 994484014524 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484014525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484014526 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 994484014527 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_2; cd06252 994484014528 putative active site [active] 994484014529 Zn-binding site [ion binding]; other site 994484014530 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 994484014531 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 994484014532 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...; Region: APP_MetAP; cd01066 994484014533 active site 994484014534 ectoine utilization protein EutC; Validated; Region: PRK08291 994484014535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014536 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 994484014537 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 994484014538 tetramer interface [polypeptide binding]; other site 994484014539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014540 catalytic residue [active] 994484014541 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 994484014542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484014543 DNA-binding site [nucleotide binding]; DNA binding site 994484014544 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 994484014545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014546 homodimer interface [polypeptide binding]; other site 994484014547 catalytic residue [active] 994484014548 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 994484014549 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...; Region: PBPb; cd00134 994484014550 substrate binding pocket [chemical binding]; other site 994484014551 membrane-bound complex binding site; other site 994484014552 hinge residues; other site 994484014553 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 994484014554 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484014555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484014556 ABC-ATPase subunit interface; other site 994484014557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484014558 dimer interface [polypeptide binding]; other site 994484014559 conserved gate region; other site 994484014560 putative PBP binding loops; other site 994484014561 ABC-ATPase subunit interface; other site 994484014562 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 994484014563 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484014564 Walker A/P-loop; other site 994484014565 ATP binding site [chemical binding]; other site 994484014566 Q-loop/lid; other site 994484014567 ABC transporter signature motif; other site 994484014568 Walker B; other site 994484014569 D-loop; other site 994484014570 H-loop/switch region; other site 994484014571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484014572 ligand binding site [chemical binding]; other site 994484014573 acetylornithine aminotransferase; Provisional; Region: PRK02627 994484014574 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 994484014575 inhibitor-cofactor binding pocket; inhibition site 994484014576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014577 catalytic residue [active] 994484014578 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484014579 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484014580 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 994484014581 putative effector binding pocket; other site 994484014582 putative dimerization interface [polypeptide binding]; other site 994484014583 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 994484014584 PAS fold; Region: PAS_3; pfam08447 994484014585 putative active site [active] 994484014586 heme pocket [chemical binding]; other site 994484014587 RmuC family; Region: RmuC; pfam02646 994484014588 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484014589 metal binding site [ion binding]; metal-binding site 994484014590 active site 994484014591 I-site; other site 994484014592 Protein of unknown function DUF72; Region: DUF72; cl00777 994484014593 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484014594 UbiA prenyltransferase family; Region: UbiA; cl00337 994484014595 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 994484014596 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 994484014597 Subunit I/III interface [polypeptide binding]; other site 994484014598 Subunit III/IV interface [polypeptide binding]; other site 994484014599 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 994484014600 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 994484014601 D-pathway; other site 994484014602 Putative ubiquinol binding site [chemical binding]; other site 994484014603 Low-spin heme (heme b) binding site [chemical binding]; other site 994484014604 Putative water exit pathway; other site 994484014605 Binuclear center (heme o3/CuB) [ion binding]; other site 994484014606 K-pathway; other site 994484014607 Putative proton exit pathway; other site 994484014608 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 994484014609 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 994484014610 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 994484014611 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 994484014612 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 994484014613 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 994484014614 heme-binding site [chemical binding]; other site 994484014615 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 994484014616 FAD binding pocket [chemical binding]; other site 994484014617 FAD binding motif [chemical binding]; other site 994484014618 phosphate binding motif [ion binding]; other site 994484014619 beta-alpha-beta structure motif; other site 994484014620 NAD binding pocket [chemical binding]; other site 994484014621 Heme binding pocket [chemical binding]; other site 994484014622 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 994484014623 GAF domain; Region: GAF; cl00853 994484014624 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...; Region: AAA; cd00009 994484014625 Walker A motif; other site 994484014626 ATP binding site [chemical binding]; other site 994484014627 Walker B motif; other site 994484014628 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484014629 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484014630 Response regulator receiver domain; Region: Response_reg; pfam00072 994484014631 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 994484014632 active site 994484014633 phosphorylation site [posttranslational modification] 994484014634 intermolecular recognition site; other site 994484014635 dimerization interface [polypeptide binding]; other site 994484014636 Flagellin N-methylase; Region: FliB; cl00497 994484014637 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 994484014638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014639 EamA-like transporter family; Region: EamA; cl01037 994484014640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484014641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014642 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; cl00250 994484014643 30S subunit binding site; other site 994484014644 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 994484014645 Phosphate-starvation-inducible E; Region: PsiE; cl01264 994484014646 YebG protein; Region: YebG; cl01217 994484014647 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 994484014648 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484014649 DNA-binding site [nucleotide binding]; DNA binding site 994484014650 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 994484014651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014652 homodimer interface [polypeptide binding]; other site 994484014653 catalytic residue [active] 994484014654 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484014655 benzoate transporter; Region: benE; TIGR00843 994484014656 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484014657 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 994484014658 homotrimer interaction site [polypeptide binding]; other site 994484014659 putative active site [active] 994484014660 threonine synthase; Validated; Region: PRK06260 994484014661 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 994484014662 homodimer interface [polypeptide binding]; other site 994484014663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014664 catalytic residue [active] 994484014665 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484014666 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...; Region: SHMT; cd00378 994484014667 dimer interface [polypeptide binding]; other site 994484014668 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484014669 active site 994484014670 folate binding site [chemical binding]; other site 994484014671 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 994484014672 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 994484014673 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 994484014674 NAD binding site [chemical binding]; other site 994484014675 Phe binding site; other site 994484014676 Uncharacterized conserved protein [Function unknown]; Region: COG2912 994484014677 hypothetical protein; Provisional; Region: PRK10941 994484014678 maleylacetoacetate isomerase; Region: maiA; TIGR01262 994484014679 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484014680 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 994484014681 dimer interface [polypeptide binding]; other site 994484014682 N-terminal domain interface [polypeptide binding]; other site 994484014683 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 994484014684 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 994484014685 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 994484014686 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484014687 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 994484014688 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484014689 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484014690 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484014691 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 994484014692 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...; Region: LuxR_C_like; cd06170 994484014693 DNA binding residues [nucleotide binding] 994484014694 dimerization interface [polypeptide binding]; other site 994484014695 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484014696 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484014697 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 994484014698 amidase catalytic site [active] 994484014699 Zn binding residues [ion binding]; other site 994484014700 substrate binding site [chemical binding]; other site 994484014701 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 994484014702 homodimer interface [polypeptide binding]; other site 994484014703 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484014704 NAD binding site [chemical binding]; other site 994484014705 active site 994484014706 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484014707 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 994484014708 intersubunit interface [polypeptide binding]; other site 994484014709 active site 994484014710 Zn2+ binding site [ion binding]; other site 994484014711 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484014712 PAS domain S-box; Region: sensory_box; TIGR00229 994484014713 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 994484014714 putative active site [active] 994484014715 heme pocket [chemical binding]; other site 994484014716 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 994484014717 DNA binding residues [nucleotide binding] 994484014718 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 994484014719 dihydromonapterin reductase; Provisional; Region: PRK06483 994484014720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014721 NAD(P) binding site [chemical binding]; other site 994484014722 active site 994484014723 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 994484014724 homodecamer interface [polypeptide binding]; other site 994484014725 GTP cyclohydrolase I; Provisional; Region: PLN03044 994484014726 active site 994484014727 putative catalytic site residues [active] 994484014728 zinc binding site [ion binding]; other site 994484014729 GTP-CH-I/GFRP interaction surface; other site 994484014730 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 994484014731 active site 994484014732 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 994484014733 HopJ type III effector protein; Region: HopJ; pfam08888 994484014734 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 994484014735 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 994484014736 inhibitor-cofactor binding pocket; inhibition site 994484014737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014738 catalytic residue [active] 994484014739 thioredoxin reductase; Provisional; Region: PRK10262 994484014740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014741 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 994484014742 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484014743 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_2; cd03814 994484014744 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484014745 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 994484014746 putative active site [active] 994484014747 putative FMN binding site [chemical binding]; other site 994484014748 putative substrate binding site [chemical binding]; other site 994484014749 putative catalytic residue [active] 994484014750 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue...; Region: GSH_Peroxidase; cd00340 994484014751 catalytic residues [active] 994484014752 dimer interface [polypeptide binding]; other site 994484014753 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484014754 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 994484014755 phosphate acetyltransferase; Reviewed; Region: PRK05632 994484014756 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484014757 DRTGG domain; Region: DRTGG; cl12147 994484014758 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 994484014759 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484014760 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 994484014761 putative acyl-acceptor binding pocket; other site 994484014762 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 994484014763 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 994484014764 CysD dimerization site [polypeptide binding]; other site 994484014765 G1 box; other site 994484014766 putative GEF interaction site [polypeptide binding]; other site 994484014767 GTP/Mg2+ binding site [chemical binding]; other site 994484014768 Switch I region; other site 994484014769 G2 box; other site 994484014770 G3 box; other site 994484014771 Switch II region; other site 994484014772 G4 box; other site 994484014773 G5 box; other site 994484014774 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...; Region: CysN_NodQ_II; cd03695 994484014775 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...; Region: CysN_NoDQ_III; cd04095 994484014776 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...; Region: APSK; cd02027 994484014777 ligand-binding site [chemical binding]; other site 994484014778 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 994484014779 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 994484014780 Active Sites [active] 994484014781 Uncharacterized conserved protein [Function unknown]; Region: COG0327 994484014782 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 994484014783 serine endoprotease; Provisional; Region: PRK10898 994484014784 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...; Region: Tryp_SPc; cl00149 994484014785 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 C-...; Region: PDZ_serine_protease; cd00987 994484014786 protein binding site [polypeptide binding]; other site 994484014787 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484014788 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 994484014789 N-terminal plug; other site 994484014790 ligand-binding site [chemical binding]; other site 994484014791 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 994484014792 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 994484014793 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 994484014794 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 994484014795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484014796 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484014797 Predicted dehydrogenase [General function prediction only]; Region: COG0579 994484014798 putative transporter; Provisional; Region: PRK11660 994484014799 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484014800 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484014801 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 994484014802 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484014803 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484014804 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484014805 Permease family; Region: Xan_ur_permease; pfam00860 994484014806 ferrochelatase; Reviewed; Region: hemH; PRK00035 994484014807 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 994484014808 C-terminal domain interface [polypeptide binding]; other site 994484014809 active site 994484014810 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 994484014811 active site 994484014812 N-terminal domain interface [polypeptide binding]; other site 994484014813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014814 TIGR01777 family protein; Region: yfcH 994484014815 NAD(P) binding site [chemical binding]; other site 994484014816 active site 994484014817 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 994484014818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014819 Protein of unknown function (DUF523); Region: DUF523; cl00733 994484014820 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 994484014821 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 994484014822 DNA binding residues [nucleotide binding] 994484014823 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 994484014824 DNA photolyase; Region: DNA_photolyase; pfam00875 994484014825 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 994484014826 classical (c) SDRs; Region: SDR_c; cd05233 994484014827 NAD(P) binding site [chemical binding]; other site 994484014828 active site 994484014829 Flagellin N-methylase; Region: FliB; cl00497 994484014830 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 994484014831 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484014832 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 994484014833 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...; Region: ThiF_MoeB_HesA_family; cd00757 994484014834 ATP binding site [chemical binding]; other site 994484014835 substrate interface [chemical binding]; other site 994484014836 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 994484014837 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 994484014838 S-adenosylmethionine binding site [chemical binding]; other site 994484014839 peptide chain release factor 1; Validated; Region: prfA; PRK00591 994484014840 RF-1 domain; Region: RF-1; cl02875 994484014841 RF-1 domain; Region: RF-1; cl02875 994484014842 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 994484014843 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 994484014844 tRNA; other site 994484014845 putative tRNA binding site [nucleotide binding]; other site 994484014846 putative NADP binding site [chemical binding]; other site 994484014847 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 994484014848 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 994484014849 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 994484014850 binding surface 994484014851 TPR motif; other site 994484014852 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 994484014853 binding surface 994484014854 TPR motif; other site 994484014855 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 994484014856 binding surface 994484014857 TPR motif; other site 994484014858 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 994484014859 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 994484014860 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 994484014861 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 994484014862 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 994484014863 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484014864 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 994484014865 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 994484014866 5S rRNA interface [nucleotide binding]; other site 994484014867 CTC domain interface [polypeptide binding]; other site 994484014868 L16 interface [polypeptide binding]; other site 994484014869 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 994484014870 putative active site [active] 994484014871 catalytic residue [active] 994484014872 GTP-binding protein YchF; Reviewed; Region: PRK09601 994484014873 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 994484014874 G1 box; other site 994484014875 GTP/Mg2+ binding site [chemical binding]; other site 994484014876 Switch I region; other site 994484014877 G2 box; other site 994484014878 Switch II region; other site 994484014879 G3 box; other site 994484014880 G4 box; other site 994484014881 G5 box; other site 994484014882 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 994484014883 Transposase, Mutator family; Region: Transposase_mut; pfam00872 994484014884 MULE transposase domain; Region: MULE; pfam10551 994484014885 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 994484014886 Cache domain; Region: Cache_1; pfam02743 994484014887 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 994484014888 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484014889 dimerization interface [polypeptide binding]; other site 994484014890 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484014891 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484014892 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which...; Region: B_lectin; cl00039 994484014893 mannose binding site [chemical binding]; other site 994484014894 dimerization interface [polypeptide binding]; other site 994484014895 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 994484014896 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484014897 putative substrate translocation pore; other site 994484014898 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 994484014899 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484014900 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484014901 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 994484014902 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 994484014903 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 994484014904 PAS fold; Region: PAS_3; pfam08447 994484014905 putative active site [active] 994484014906 heme pocket [chemical binding]; other site 994484014907 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 994484014908 PAS fold; Region: PAS_3; pfam08447 994484014909 putative active site [active] 994484014910 heme pocket [chemical binding]; other site 994484014911 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484014912 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; cl09110 994484014913 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 994484014914 active site clefts [active] 994484014915 zinc binding site [ion binding]; other site 994484014916 dimer interface [polypeptide binding]; other site 994484014917 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 994484014918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484014919 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 994484014920 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 994484014921 mce related protein; Region: MCE; pfam02470 994484014922 mce related protein; Region: MCE; pfam02470 994484014923 mce related protein; Region: MCE; pfam02470 994484014924 mce related protein; Region: MCE; pfam02470 994484014925 mce related protein; Region: MCE; pfam02470 994484014926 mce related protein; Region: MCE; pfam02470 994484014927 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484014928 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484014929 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 994484014930 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 994484014931 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 994484014932 Moco binding site; other site 994484014933 metal coordination site [ion binding]; other site 994484014934 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 994484014935 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 994484014936 ketol-acid reductoisomerase; Provisional; Region: PRK05479 994484014937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014938 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 994484014939 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 994484014940 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 994484014941 putative valine binding site [chemical binding]; other site 994484014942 dimer interface [polypeptide binding]; other site 994484014943 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 994484014944 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 994484014945 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484014946 PYR/PP interface [polypeptide binding]; other site 994484014947 dimer interface [polypeptide binding]; other site 994484014948 TPP binding site [chemical binding]; other site 994484014949 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484014950 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 994484014951 TPP-binding site [chemical binding]; other site 994484014952 dimer interface [polypeptide binding]; other site 994484014953 Domain of unknown function, DUF446; Region: DUF446; cl01187 994484014954 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 994484014955 TPR motif; other site 994484014956 binding surface 994484014957 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 994484014958 Transglycosylase; Region: Transgly; cl07896 994484014959 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 994484014960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 994484014961 Predicted kinase [General function prediction only]; Region: COG0645 994484014962 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 994484014963 ATP-binding site [chemical binding]; other site 994484014964 Gluconate-6-phosphate binding site [chemical binding]; other site 994484014965 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 994484014966 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484014967 TfoX N-terminal domain; Region: TfoX_N; cl01167 994484014968 Protein of unknown function, DUF399; Region: DUF399; cl01139 994484014969 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 994484014970 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 994484014971 Walker A/P-loop; other site 994484014972 ATP binding site [chemical binding]; other site 994484014973 Q-loop/lid; other site 994484014974 ABC transporter signature motif; other site 994484014975 Walker B; other site 994484014976 D-loop; other site 994484014977 H-loop/switch region; other site 994484014978 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...; Region: TM_ABC_iron-siderophores_like; cd06550 994484014979 ABC-ATPase subunit interface; other site 994484014980 dimer interface [polypeptide binding]; other site 994484014981 putative PBP binding regions; other site 994484014982 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...; Region: TroA-like; cl00262 994484014983 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 994484014984 intersubunit interface [polypeptide binding]; other site 994484014985 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)...; Region: Rieske; cd03467 994484014986 iron-sulfur cluster [ion binding]; other site 994484014987 [2Fe-2S] cluster binding site [ion binding]; other site 994484014988 Sugar fermentation stimulation protein; Region: SfsA; cl00647 994484014989 hypothetical protein; Validated; Region: PRK07682 994484014990 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 994484014991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014992 homodimer interface [polypeptide binding]; other site 994484014993 catalytic residue [active] 994484014994 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 994484014995 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484014996 active site 994484014997 HIGH motif; other site 994484014998 nucleotide binding site [chemical binding]; other site 994484014999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484015000 KMSKS motif; other site 994484015001 Sodium:solute symporter family; Region: SSF; cl00456 994484015002 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484015003 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 994484015004 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 trans-...; Region: HisKA; cd00082 994484015005 dimer interface [polypeptide binding]; other site 994484015006 phosphorylation site [posttranslational modification] 994484015007 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 994484015008 ATP binding site [chemical binding]; other site 994484015009 Mg2+ binding site [ion binding]; other site 994484015010 G-X-G motif; other site 994484015011 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484015012 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 994484015013 active site 994484015014 phosphorylation site [posttranslational modification] 994484015015 intermolecular recognition site; other site 994484015016 dimerization interface [polypeptide binding]; other site 994484015017 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...; Region: AAA; cd00009 994484015018 Walker A motif; other site 994484015019 ATP binding site [chemical binding]; other site 994484015020 Walker B motif; other site 994484015021 arginine finger; other site 994484015022 poly(A) polymerase; Region: pcnB; TIGR01942 994484015023 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 994484015024 active site 994484015025 NTP binding site [chemical binding]; other site 994484015026 metal binding triad [ion binding]; metal-binding site 994484015027 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 994484015028 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 994484015029 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 994484015030 catalytic center binding site [active] 994484015031 ATP binding site [chemical binding]; other site 994484015032 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 994484015033 oligomerization interface [polypeptide binding]; other site 994484015034 active site 994484015035 metal binding site [ion binding]; metal-binding site 994484015036 Pantoate-beta-alanine ligase; Region: PanC; cd00560 994484015037 pantoate--beta-alanine ligase; Region: panC; TIGR00018 994484015038 active site 994484015039 ATP-binding site [chemical binding]; other site 994484015040 pantoate-binding site; other site 994484015041 HXXH motif; other site 994484015042 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 994484015043 tetramerization interface [polypeptide binding]; other site 994484015044 active site 994484015045 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 994484015046 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 994484015047 active site 994484015048 dimer interface [polypeptide binding]; other site 994484015049 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 994484015050 dimer interface [polypeptide binding]; other site 994484015051 active site 994484015052 acetyl-CoA synthetase; Provisional; Region: PRK00174 994484015053 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 994484015054 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 994484015055 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; cl12011 994484015056 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484015057 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484015058 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484015059 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 994484015060 BON domain; Region: BON; cl02771 994484015061 Pilin (bacterial filament); Region: Pilin; pfam00114 994484015062 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 994484015063 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 994484015064 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 994484015065 Walker A motif; other site 994484015066 ATP binding site [chemical binding]; other site 994484015067 Walker B motif; other site 994484015068 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 994484015069 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 994484015070 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 994484015071 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 994484015072 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 994484015073 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 994484015074 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 994484015075 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 994484015076 CoA-binding site [chemical binding]; other site 994484015077 ATP-binding [chemical binding]; other site 994484015078 Domain of unknown function (DUF329); Region: DUF329; cl01144 994484015079 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 994484015080 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 994484015081 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 994484015082 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484015083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015084 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 994484015085 dimerization interface [polypeptide binding]; other site 994484015086 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 994484015087 MOSC domain; Region: MOSC; pfam03473 994484015088 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 994484015089 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 994484015090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015091 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 994484015092 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484015093 dimerization interface [polypeptide binding]; other site 994484015094 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484015095 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484015096 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 994484015097 Clp amino terminal domain; Region: Clp_N; pfam02861 994484015098 Clp amino terminal domain; Region: Clp_N; pfam02861 994484015099 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...; Region: AAA; cd00009 994484015100 Walker A motif; other site 994484015101 ATP binding site [chemical binding]; other site 994484015102 Walker B motif; other site 994484015103 arginine finger; other site 994484015104 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...; Region: AAA; cd00009 994484015105 Walker A motif; other site 994484015106 ATP binding site [chemical binding]; other site 994484015107 Walker B motif; other site 994484015108 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 994484015109 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 994484015110 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 994484015111 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 994484015112 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 994484015113 RNA binding surface [nucleotide binding]; other site 994484015114 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 994484015115 active site 994484015116 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 994484015117 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; cl11511 994484015118 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 994484015119 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 994484015120 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 trans-...; Region: HisKA; cd00082 994484015121 dimer interface [polypeptide binding]; other site 994484015122 phosphorylation site [posttranslational modification] 994484015123 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 994484015124 ATP binding site [chemical binding]; other site 994484015125 Mg2+ binding site [ion binding]; other site 994484015126 G-X-G motif; other site 994484015127 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484015128 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 994484015129 active site 994484015130 phosphorylation site [posttranslational modification] 994484015131 intermolecular recognition site; other site 994484015132 dimerization interface [polypeptide binding]; other site 994484015133 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...; Region: AAA; cd00009 994484015134 Walker A motif; other site 994484015135 ATP binding site [chemical binding]; other site 994484015136 Walker B motif; other site 994484015137 arginine finger; other site 994484015138 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484015139 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484015140 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 994484015141 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484015142 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 994484015143 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 994484015144 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 994484015145 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 994484015146 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 994484015147 Type II transport protein GspH; Region: GspH; pfam12019 994484015148 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 994484015149 Type II transport protein GspH; Region: GspH; pfam12019 994484015150 LytB protein; Region: LYTB; cl00507 994484015151 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 994484015152 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484015153 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 994484015154 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 994484015155 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484015156 active site 994484015157 HIGH motif; other site 994484015158 nucleotide binding site [chemical binding]; other site 994484015159 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 994484015160 active site 994484015161 KMSKS motif; other site 994484015162 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 994484015163 tRNA binding surface [nucleotide binding]; other site 994484015164 anticodon binding site; other site 994484015165 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 994484015166 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 994484015167 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 994484015168 active site 994484015169 Riboflavin kinase; Region: Flavokinase; cl03312 994484015170 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 994484015171 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 994484015172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484015173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484015174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484015175 CreA protein; Region: CreA; cl01154 994484015176 gamma-glutamyl kinase; Provisional; Region: PRK05429 994484015177 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 994484015178 nucleotide binding site [chemical binding]; other site 994484015179 homotetrameric interface [polypeptide binding]; other site 994484015180 putative phosphate binding site [ion binding]; other site 994484015181 putative allosteric binding site; other site 994484015182 PUA domain; Region: PUA; cl00607 994484015183 GTPase CgtA; Reviewed; Region: obgE; PRK12298 994484015184 GTP1/OBG; Region: GTP1_OBG; pfam01018 994484015185 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 994484015186 G1 box; other site 994484015187 GTP/Mg2+ binding site [chemical binding]; other site 994484015188 Switch I region; other site 994484015189 G2 box; other site 994484015190 G3 box; other site 994484015191 Switch II region; other site 994484015192 G4 box; other site 994484015193 G5 box; other site 994484015194 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 994484015195 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 994484015196 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 994484015197 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 994484015198 substrate binding pocket [chemical binding]; other site 994484015199 chain length determination region; other site 994484015200 substrate-Mg2+ binding site; other site 994484015201 catalytic residues [active] 994484015202 aspartate-rich region 1; other site 994484015203 active site lid residues [active] 994484015204 aspartate-rich region 2; other site 994484015205 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 994484015206 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 994484015207 PhnA protein; Region: PhnA; pfam03831 994484015208 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 994484015209 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 994484015210 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484015211 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 994484015212 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 994484015213 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484015214 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 994484015215 transcription elongation factor regulatory protein; Validated; Region: PRK06342 994484015216 C-term; Region: GreA_GreB; pfam01272 994484015217 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 994484015218 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...; Region: ABCF_EF-3; cd03221 994484015219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484015220 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...; Region: ABCF_EF-3; cd03221 994484015221 ABC transporter; Region: ABC_tran_2; pfam12848 994484015222 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...; Region: ABCF_EF-3; cd03221 994484015223 PAS fold; Region: PAS_3; pfam08447 994484015224 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484015225 PAS domain S-box; Region: sensory_box; TIGR00229 994484015226 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484015227 PAS domain S-box; Region: sensory_box; TIGR00229 994484015228 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 994484015229 putative active site [active] 994484015230 heme pocket [chemical binding]; other site 994484015231 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484015232 metal binding site [ion binding]; metal-binding site 994484015233 active site 994484015234 I-site; other site 994484015235 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 994484015236 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484015237 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...; Region: SHMT; cd00378 994484015238 dimer interface [polypeptide binding]; other site 994484015239 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484015240 active site 994484015241 folate binding site [chemical binding]; other site 994484015242 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484015243 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484015244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484015245 DNA-binding site [nucleotide binding]; DNA binding site 994484015246 FCD domain; Region: FCD; cl11656 994484015247 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484015248 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484015249 DNA-binding site [nucleotide binding]; DNA binding site 994484015250 FCD domain; Region: FCD; cl11656 994484015251 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 994484015252 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 994484015253 P-loop, Walker A motif; other site 994484015254 Base recognition motif; other site 994484015255 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 994484015256 Protein of unknown function (DUF466); Region: DUF466; cl01082 994484015257 Carbon starvation protein CstA; Region: CstA; cl00856 994484015258 DNA repair protein RadA; Provisional; Region: PRK11823 994484015259 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 994484015260 Walker A motif/ATP binding site; other site 994484015261 ATP binding site [chemical binding]; other site 994484015262 Walker B motif; other site 994484015263 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484015264 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 994484015265 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 994484015266 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 994484015267 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 994484015268 tetramer interface [polypeptide binding]; other site 994484015269 heme binding pocket [chemical binding]; other site 994484015270 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 994484015271 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 994484015272 ferredoxin-NADP reductase; Provisional; Region: PRK10926 994484015273 FAD binding pocket [chemical binding]; other site 994484015274 FAD binding motif [chemical binding]; other site 994484015275 phosphate binding motif [ion binding]; other site 994484015276 beta-alpha-beta structure motif; other site 994484015277 NAD binding pocket [chemical binding]; other site 994484015278 transcriptional regulator TraR; Provisional; Region: PRK13870 994484015279 Autoinducer binding domain; Region: Autoind_bind; pfam03472 994484015280 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...; Region: LuxR_C_like; cd06170 994484015281 DNA binding residues [nucleotide binding] 994484015282 dimerization interface [polypeptide binding]; other site 994484015283 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 994484015284 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 994484015285 S-adenosylmethionine binding site [chemical binding]; other site 994484015286 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 994484015287 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 994484015288 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 994484015289 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 994484015290 H+ Antiporter protein; Region: 2A0121; TIGR00900 994484015291 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 994484015292 putative substrate translocation pore; other site 994484015293 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484015294 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 994484015295 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484015296 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 994484015297 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 994484015298 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 994484015299 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484015300 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 994484015301 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484015302 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484015303 conserved cys residue [active] 994484015304 Sulfate transporter family; Region: Sulfate_transp; cl00967 994484015305 Permease family; Region: Xan_ur_permease; pfam00860 994484015306 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 994484015307 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; cl12011 994484015308 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 994484015309 active site 994484015310 trimer interface [polypeptide binding]; other site 994484015311 dimer interface [polypeptide binding]; other site 994484015312 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 994484015313 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 994484015314 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484015315 shikimate binding site; other site 994484015316 NAD(P) binding site [chemical binding]; other site 994484015317 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484015318 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484015319 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484015320 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 994484015321 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 994484015322 dimer interface [polypeptide binding]; other site 994484015323 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 994484015324 active site 994484015325 Fe binding site [ion binding]; other site 994484015326 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 994484015327 D-galactonate transporter; Region: 2A0114; TIGR00893 994484015328 putative substrate translocation pore; other site 994484015329 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484015330 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484015331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015332 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484015333 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 994484015334 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484015335 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 994484015336 motif II; other site 994484015337 acyl-CoA thioesterase II; Provisional; Region: PRK10526 994484015338 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 994484015339 active site 994484015340 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 994484015341 catalytic triad [active] 994484015342 dimer interface [polypeptide binding]; other site 994484015343 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484015344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484015345 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 994484015346 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 994484015347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015348 Predicted flavoproteins [General function prediction only]; Region: COG2081 994484015349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015350 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 994484015351 DEAD-like helicases superfamily; Region: DEXDc; smart00487 994484015352 ATP binding site [chemical binding]; other site 994484015353 Mg++ binding site [ion binding]; other site 994484015354 motif III; other site 994484015355 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 994484015356 nucleotide binding region [chemical binding]; other site 994484015357 ATP-binding site [chemical binding]; other site 994484015358 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 994484015359 EamA-like transporter family; Region: EamA; cl01037 994484015360 EamA-like transporter family; Region: EamA; cl01037 994484015361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015362 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 994484015363 active site 994484015364 catalytic site [active] 994484015365 substrate binding site [chemical binding]; other site 994484015366 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 994484015367 putative metal binding site [ion binding]; other site 994484015368 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 994484015369 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 994484015370 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 994484015371 putative catalytic site [active] 994484015372 putative metal binding site [ion binding]; other site 994484015373 putative phosphate binding site [ion binding]; other site 994484015374 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 994484015375 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 994484015376 ATP binding site [chemical binding]; other site 994484015377 putative Mg++ binding site [ion binding]; other site 994484015378 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 994484015379 nucleotide binding region [chemical binding]; other site 994484015380 ATP-binding site [chemical binding]; other site 994484015381 Helicase associated domain (HA2); Region: HA2; cl04503 994484015382 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 994484015383 Cation efflux family; Region: Cation_efflux; cl00316 994484015384 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 994484015385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015386 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 994484015387 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-...; Region: PseudoU_synth_RluE; cd02566 994484015388 probable active site [active] 994484015389 AMP nucleosidase; Provisional; Region: PRK08292 994484015390 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 994484015391 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 994484015392 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 994484015393 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484015394 active site 994484015395 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 994484015396 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 994484015397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484015398 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 trans-...; Region: HisKA; cd00082 994484015399 dimer interface [polypeptide binding]; other site 994484015400 phosphorylation site [posttranslational modification] 994484015401 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 994484015402 ATP binding site [chemical binding]; other site 994484015403 Mg2+ binding site [ion binding]; other site 994484015404 G-X-G motif; other site 994484015405 Response regulator receiver domain; Region: Response_reg; pfam00072 994484015406 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 994484015407 active site 994484015408 phosphorylation site [posttranslational modification] 994484015409 intermolecular recognition site; other site 994484015410 dimerization interface [polypeptide binding]; other site 994484015411 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 994484015412 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 994484015413 dimer interface [polypeptide binding]; other site 994484015414 substrate binding site [chemical binding]; other site 994484015415 ATP binding site [chemical binding]; other site 994484015416 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- (beta-...; Region: TMP_TenI; cd00564 994484015417 thiamine phosphate binding site [chemical binding]; other site 994484015418 active site 994484015419 pyrophosphate binding site [ion binding]; other site 994484015420 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 994484015421 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 994484015422 inhibitor-cofactor binding pocket; inhibition site 994484015423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015424 catalytic residue [active] 994484015425 Sel1 repeat; Region: Sel1; cl02723 994484015426 Sel1 repeat; Region: Sel1; cl02723 994484015427 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 994484015428 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 994484015429 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 994484015430 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 994484015431 FeS/SAM binding site; other site 994484015432 TRAM domain; Region: TRAM; cl01282 994484015433 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 994484015434 PhoH-like protein; Region: PhoH; cl12134 994484015435 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 994484015436 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 994484015437 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 994484015438 Transporter associated domain; Region: CorC_HlyC; cl08393 994484015439 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 994484015440 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 994484015441 putative active site [active] 994484015442 catalytic triad [active] 994484015443 putative dimer interface [polypeptide binding]; other site 994484015444 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 994484015445 putative active site [active] 994484015446 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 994484015447 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 994484015448 HIGH motif; other site 994484015449 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484015450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484015451 active site 994484015452 KMSKS motif; other site 994484015453 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 994484015454 tRNA binding surface [nucleotide binding]; other site 994484015455 Lipopolysaccharide-assembly; Region: LptE; cl01125 994484015456 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 994484015457 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 994484015458 Domain of unknown function; Region: DUF331; cl01149 994484015459 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 994484015460 lytic murein transglycosylase; Region: MltB_2; TIGR02283 994484015461 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 994484015462 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 994484015463 dimer interface [polypeptide binding]; other site 994484015464 catalytic triad [active] 994484015465 lipoyl synthase; Provisional; Region: PRK05481 994484015466 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; cl15259 994484015467 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 994484015468 Protein of unknown function (DUF493); Region: DUF493; cl01102 994484015469 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 994484015470 Beta-lactamase; Region: Beta-lactamase; cl01009 994484015471 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 994484015472 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 994484015473 Sporulation related domain; Region: SPOR; cl10051 994484015474 lytic murein transglycosylase; Region: MltB_2; TIGR02283 994484015475 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 994484015476 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484015477 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 994484015478 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 994484015479 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 994484015480 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 994484015481 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 994484015482 Domain of unknown function DUF143; Region: DUF143; cl00519 994484015483 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 994484015484 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 994484015485 active site 994484015486 (T/H)XGH motif; other site 994484015487 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 994484015488 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 994484015489 putative catalytic cysteine [active] 994484015490 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 994484015491 active site 994484015492 DNA binding site [nucleotide binding] 994484015493 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 994484015494 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 994484015495 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 994484015496 active site 994484015497 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 994484015498 LrgB-like family; Region: LrgB; cl00596 994484015499 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 994484015500 putative active site [active] 994484015501 putative catalytic site [active] 994484015502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 994484015503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 994484015504 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 994484015505 Peptidase C13 family; Region: Peptidase_C13; cl02159 994484015506 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 994484015507 NAD binding site [chemical binding]; other site 994484015508 active site 994484015509 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 994484015510 aromatic acid decarboxylase; Validated; Region: PRK05920 994484015511 Flavoprotein; Region: Flavoprotein; cl08021 994484015512 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 994484015513 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484015514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484015515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484015516 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484015517 GAF domain; Region: GAF; cl00853 994484015518 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 994484015519 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...; Region: AAA; cd00009 994484015520 Walker A motif; other site 994484015521 ATP binding site [chemical binding]; other site 994484015522 Walker B motif; other site 994484015523 arginine finger; other site 994484015524 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484015525 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484015526 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484015527 NAD(P) binding site [chemical binding]; other site 994484015528 catalytic residues [active] 994484015529 ethanolamine permease; Region: 2A0305; TIGR00908 994484015530 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484015531 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 994484015532 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; cl09205 994484015533 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 994484015534 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484015535 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 994484015536 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 994484015537 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 994484015538 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 994484015539 dimer interface [polypeptide binding]; other site 994484015540 substrate binding site [chemical binding]; other site 994484015541 metal binding sites [ion binding]; metal-binding site 994484015542 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 (...; Region: S24_LexA-like; cd06529 994484015543 Catalytic site [active] 994484015544 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 994484015545 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...; Region: HNHc; cl00083 994484015546 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 994484015547 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 994484015548 Uncharacterized conserved protein [Function unknown]; Region: COG3410 994484015549 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 994484015550 active site 994484015551 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 994484015552 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484015553 NAD(P) binding site [chemical binding]; other site 994484015554 catalytic residues [active] 994484015555 homoserine dehydrogenase; Provisional; Region: PRK06270 994484015556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015557 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 994484015558 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484015559 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015561 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 994484015562 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants...; Region: Thr-synth_2; cd01560 994484015563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015564 catalytic residue [active] 994484015565 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484015566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015567 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 994484015568 dimerization interface [polypeptide binding]; other site 994484015569 substrate binding pocket [chemical binding]; other site 994484015570 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 994484015571 Amino acid permease; Region: AA_permease; pfam00324 994484015572 cystathionine gamma-synthase; Provisional; Region: PRK08249 994484015573 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 994484015574 homodimer interface [polypeptide binding]; other site 994484015575 substrate-cofactor binding pocket; other site 994484015576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015577 catalytic residue [active] 994484015578 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484015579 RHS Repeat; Region: RHS_repeat; cl11982 994484015580 RHS Repeat; Region: RHS_repeat; cl11982 994484015581 RHS Repeat; Region: RHS_repeat; cl11982 994484015582 RHS Repeat; Region: RHS_repeat; cl11982 994484015583 RHS Repeat; Region: RHS_repeat; cl11982 994484015584 RHS Repeat; Region: RHS_repeat; cl11982 994484015585 RHS Repeat; Region: RHS_repeat; cl11982 994484015586 RHS protein; Region: RHS; pfam03527 994484015587 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484015588 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484015589 Coenzyme A binding pocket [chemical binding]; other site 994484015590 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 994484015591 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 994484015592 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 994484015593 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 994484015594 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; cl12011 994484015595 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 994484015596 active site 994484015597 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 994484015598 Dual specificity phosphatase, catalytic domain; Region: DSPc; pfam00782 994484015599 active site 994484015600 catalytic residues [active] 994484015601 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484015602 putative acyl-acceptor binding pocket; other site 994484015603 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 994484015604 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 994484015605 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 994484015606 Predicted membrane protein [Function unknown]; Region: COG3766 994484015607 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 994484015608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015609 PspA/IM30 family; Region: PspA_IM30; pfam04012 994484015610 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 994484015611 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl01910 994484015612 Predicted secreted protein [Function unknown]; Region: COG5445 994484015613 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 994484015614 Predicted secreted protein [Function unknown]; Region: COG5445 994484015615 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 994484015616 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 994484015617 MG2 domain; Region: A2M_N; pfam01835 994484015618 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 994484015619 Alpha-2-macroglobulin family; Region: A2M; pfam00207 994484015620 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 994484015621 surface patch; other site 994484015622 thioester region; other site 994484015623 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 994484015624 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; cl01916 994484015625 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl01910 994484015626 Fic family protein [Function unknown]; Region: COG3177 994484015627 Fic/DOC family; Region: Fic; cl00960 994484015628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015629 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 994484015630 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 994484015631 substrate binding pocket [chemical binding]; other site 994484015632 chain length determination region; other site 994484015633 substrate-Mg2+ binding site; other site 994484015634 catalytic residues [active] 994484015635 aspartate-rich region 1; other site 994484015636 active site lid residues [active] 994484015637 aspartate-rich region 2; other site 994484015638 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 994484015639 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 994484015640 TPP-binding site; other site 994484015641 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 994484015642 PYR/PP interface [polypeptide binding]; other site 994484015643 dimer interface [polypeptide binding]; other site 994484015644 TPP binding site [chemical binding]; other site 994484015645 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484015646 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 994484015647 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 994484015648 N-terminal plug; other site 994484015649 ligand-binding site [chemical binding]; other site 994484015650 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 994484015651 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 994484015652 cobalamin binding residues [chemical binding]; other site 994484015653 putative BtuC binding residues; other site 994484015654 dimer interface [polypeptide binding]; other site 994484015655 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 994484015656 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 994484015657 dimerization interface [polypeptide binding]; other site 994484015658 active site 994484015659 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...; Region: PBPb; cl15306 994484015660 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484015661 substrate binding pocket [chemical binding]; other site 994484015662 membrane-bound complex binding site; other site 994484015663 hinge residues; other site 994484015664 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 994484015665 tetramer interfaces [polypeptide binding]; other site 994484015666 binuclear metal-binding site [ion binding]; other site 994484015667 thiamine monophosphate kinase; Provisional; Region: PRK05731 994484015668 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 994484015669 ATP binding site [chemical binding]; other site 994484015670 dimerization interface [polypeptide binding]; other site 994484015671 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 994484015672 putative RNA binding site [nucleotide binding]; other site 994484015673 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 994484015674 homopentamer interface [polypeptide binding]; other site 994484015675 active site 994484015676 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 994484015677 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 994484015678 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 994484015679 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 994484015680 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 994484015681 Lumazine binding domain; Region: Lum_binding; pfam00677 994484015682 Lumazine binding domain; Region: Lum_binding; pfam00677 994484015683 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 994484015684 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 994484015685 catalytic motif [active] 994484015686 Zn binding site [ion binding]; other site 994484015687 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 5,10-...; Region: DHFR; cl00161 994484015688 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 994484015689 ATP cone domain; Region: ATP-cone; pfam03477 994484015690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 994484015691 Predicted methyltransferase [General function prediction only]; Region: COG3897 994484015692 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 994484015693 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 994484015694 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 994484015695 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 994484015696 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 994484015697 Walker A/P-loop; other site 994484015698 ATP binding site [chemical binding]; other site 994484015699 Q-loop/lid; other site 994484015700 ABC transporter signature motif; other site 994484015701 Walker B; other site 994484015702 D-loop; other site 994484015703 H-loop/switch region; other site 994484015704 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 994484015705 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484015706 FtsX-like permease family; Region: FtsX; pfam02687 994484015707 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 994484015708 Surface antigen; Region: Surface_Ag_2; cl01155 994484015709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015710 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484015711 NAD(P) binding site [chemical binding]; other site 994484015712 active site 994484015713 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 994484015714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015715 NAD(P) binding site [chemical binding]; other site 994484015716 active site 994484015717 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 994484015718 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 994484015719 ATP binding site [chemical binding]; other site 994484015720 putative Mg++ binding site [ion binding]; other site 994484015721 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 994484015722 nucleotide binding region [chemical binding]; other site 994484015723 ATP-binding site [chemical binding]; other site 994484015724 DEAD/H associated; Region: DEAD_assoc; pfam08494 994484015725 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 994484015726 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484015727 Protein of unknown function DUF72; Region: DUF72; cl00777 994484015728 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 994484015729 putative catalytic site [active] 994484015730 putative metal binding site [ion binding]; other site 994484015731 putative phosphate binding site [ion binding]; other site 994484015732 cardiolipin synthase 2; Provisional; Region: PRK11263 994484015733 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 994484015734 putative active site [active] 994484015735 catalytic site [active] 994484015736 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 994484015737 putative active site [active] 994484015738 catalytic site [active] 994484015739 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 994484015740 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484015741 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 994484015742 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 994484015743 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484015744 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 994484015745 conserved cys residue [active] 994484015746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484015747 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 994484015748 catalytic triad [active] 994484015749 conserved cis-peptide bond; other site 994484015750 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484015751 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 994484015752 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 994484015753 TPR motif; other site 994484015754 binding surface 994484015755 MAC/Perforin domain; Region: MACPF; cl02616 994484015756 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 994484015757 dimer interface [polypeptide binding]; other site 994484015758 ssDNA binding site [nucleotide binding]; other site 994484015759 tetramer (dimer of dimers) interface [polypeptide binding]; other site 994484015760 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 994484015761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484015762 putative substrate translocation pore; other site 994484015763 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 994484015764 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 994484015765 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 994484015766 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 994484015767 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 994484015768 Ferritin-like domain; Region: Ferritin; pfam00210 994484015769 heme binding site [chemical binding]; other site 994484015770 ferroxidase pore; other site 994484015771 ferroxidase diiron center [ion binding]; other site 994484015772 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 994484015773 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 994484015774 tetramer interface [polypeptide binding]; other site 994484015775 heme binding pocket [chemical binding]; other site 994484015776 NADPH binding site [chemical binding]; other site 994484015777 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 994484015778 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 994484015779 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 994484015780 alphaNTD homodimer interface [polypeptide binding]; other site 994484015781 alphaNTD - beta interaction site [polypeptide binding]; other site 994484015782 alphaNTD - beta' interaction site [polypeptide binding]; other site 994484015783 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 994484015784 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 994484015785 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 994484015786 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 994484015787 RNA binding surface [nucleotide binding]; other site 994484015788 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 994484015789 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 994484015790 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 994484015791 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 994484015792 SecY translocase; Region: SecY; pfam00344 994484015793 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 994484015794 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...; Region: Ribosomal_L30; cd01658 994484015795 23S rRNA binding site [nucleotide binding]; other site 994484015796 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 994484015797 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 994484015798 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 994484015799 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 994484015800 5S rRNA interface [nucleotide binding]; other site 994484015801 23S rRNA interface [nucleotide binding]; other site 994484015802 L5 interface [polypeptide binding]; other site 994484015803 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 994484015804 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 994484015805 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 994484015806 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 994484015807 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 994484015808 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 994484015809 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 994484015810 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 994484015811 KOW motif; Region: KOW; cl00354 994484015812 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 994484015813 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 994484015814 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...; Region: Ribosomal_L29_HIP; cd00427 994484015815 23S rRNA interface [nucleotide binding]; other site 994484015816 putative translocon interaction site; other site 994484015817 signal recognition particle (SRP54) interaction site; other site 994484015818 L23 interface [polypeptide binding]; other site 994484015819 trigger factor interaction site; other site 994484015820 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 994484015821 23S rRNA interface [nucleotide binding]; other site 994484015822 5S rRNA interface [nucleotide binding]; other site 994484015823 putative antibiotic binding site [chemical binding]; other site 994484015824 L25 interface [polypeptide binding]; other site 994484015825 L27 interface [polypeptide binding]; other site 994484015826 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 994484015827 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...; Region: 30S_S3_KH; cd02412 994484015828 G-X-X-G motif; other site 994484015829 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 994484015830 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 994484015831 putative translocon binding site; other site 994484015832 protein-rRNA interface [nucleotide binding]; other site 994484015833 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 994484015834 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 994484015835 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 994484015836 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 994484015837 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 994484015838 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 994484015839 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 994484015840 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 994484015841 elongation factor Tu; Reviewed; Region: PRK00049 994484015842 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 994484015843 G1 box; other site 994484015844 GEF interaction site [polypeptide binding]; other site 994484015845 GTP/Mg2+ binding site [chemical binding]; other site 994484015846 Switch I region; other site 994484015847 G2 box; other site 994484015848 G3 box; other site 994484015849 Switch II region; other site 994484015850 G4 box; other site 994484015851 G5 box; other site 994484015852 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 994484015853 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 994484015854 Antibiotic Binding Site [chemical binding]; other site 994484015855 elongation factor G; Reviewed; Region: PRK00007 994484015856 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 994484015857 G1 box; other site 994484015858 putative GEF interaction site [polypeptide binding]; other site 994484015859 GTP/Mg2+ binding site [chemical binding]; other site 994484015860 Switch I region; other site 994484015861 G2 box; other site 994484015862 G3 box; other site 994484015863 Switch II region; other site 994484015864 G4 box; other site 994484015865 G5 box; other site 994484015866 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...; Region: EFG_mtEFG_II; cd04088 994484015867 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...; Region: EFG_mtEFG1_IV; cd01434 994484015868 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...; Region: EFG_mtEFG_C; cd03713 994484015869 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 994484015870 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 994484015871 S17 interaction site [polypeptide binding]; other site 994484015872 S8 interaction site; other site 994484015873 16S rRNA interaction site [nucleotide binding]; other site 994484015874 streptomycin interaction site [chemical binding]; other site 994484015875 23S rRNA interaction site [nucleotide binding]; other site 994484015876 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 994484015877 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 994484015878 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 994484015879 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 994484015880 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 994484015881 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 994484015882 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 994484015883 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 994484015884 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 994484015885 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 994484015886 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 994484015887 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 994484015888 DNA binding site [nucleotide binding] 994484015889 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 994484015890 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 994484015891 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 994484015892 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 994484015893 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 994484015894 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 994484015895 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 994484015896 RPB11 interaction site [polypeptide binding]; other site 994484015897 RPB12 interaction site [polypeptide binding]; other site 994484015898 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 994484015899 RPB3 interaction site [polypeptide binding]; other site 994484015900 RPB1 interaction site [polypeptide binding]; other site 994484015901 RPB11 interaction site [polypeptide binding]; other site 994484015902 RPB10 interaction site [polypeptide binding]; other site 994484015903 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 994484015904 peripheral dimer interface [polypeptide binding]; other site 994484015905 core dimer interface [polypeptide binding]; other site 994484015906 L10 interface [polypeptide binding]; other site 994484015907 L11 interface [polypeptide binding]; other site 994484015908 putative EF-Tu interaction site [polypeptide binding]; other site 994484015909 putative EF-G interaction site [polypeptide binding]; other site 994484015910 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...; Region: Ribosomal_L10; cd05797 994484015911 23S rRNA interface [nucleotide binding]; other site 994484015912 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 994484015913 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...; Region: Ribosomal_L1; cd00403 994484015914 mRNA/rRNA interface [nucleotide binding]; other site 994484015915 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 994484015916 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 994484015917 23S rRNA interface [nucleotide binding]; other site 994484015918 L7/L12 interface [polypeptide binding]; other site 994484015919 putative thiostrepton binding site; other site 994484015920 L25 interface [polypeptide binding]; other site 994484015921 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 994484015922 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 994484015923 putative homodimer interface [polypeptide binding]; other site 994484015924 KOW motif; Region: KOW; cl00354 994484015925 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 994484015926 elongation factor Tu; Reviewed; Region: PRK00049 994484015927 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 994484015928 G1 box; other site 994484015929 GEF interaction site [polypeptide binding]; other site 994484015930 GTP/Mg2+ binding site [chemical binding]; other site 994484015931 Switch I region; other site 994484015932 G2 box; other site 994484015933 G3 box; other site 994484015934 Switch II region; other site 994484015935 G4 box; other site 994484015936 G5 box; other site 994484015937 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 994484015938 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 994484015939 Antibiotic Binding Site [chemical binding]; other site 994484015940 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 994484015941 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 994484015942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484015943 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 994484015944 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 994484015945 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 994484015946 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 994484015947 active site 994484015948 HIGH motif; other site 994484015949 dimer interface [polypeptide binding]; other site 994484015950 KMSKS motif; other site 994484015951 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 994484015952 putative peptidase; Provisional; Region: PRK11649 994484015953 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484015954 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 994484015955 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 994484015956 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 994484015957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015958 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 994484015959 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 994484015960 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 994484015961 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...; Region: NPD_like; cd04730 994484015962 FMN binding site [chemical binding]; other site 994484015963 substrate binding site [chemical binding]; other site 994484015964 putative catalytic residue [active] 994484015965 Protein of unknown function (DUF805); Region: DUF805; cl01224 994484015966 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 994484015967 classical (c) SDRs; Region: SDR_c; cd05233 994484015968 NAD(P) binding site [chemical binding]; other site 994484015969 active site 994484015970 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 994484015971 nucleotide binding site/active site [active] 994484015972 HIT family signature motif; other site 994484015973 catalytic residue [active] 994484015974 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 994484015975 diiron binding motif [ion binding]; other site 994484015976 OsmC-like protein; Region: OsmC; cl00767 994484015977 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 994484015978 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 994484015979 ligand binding site [chemical binding]; other site 994484015980 flexible hinge region; other site 994484015981 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 994484015982 putative switch regulator; other site 994484015983 non-specific DNA interactions [nucleotide binding]; other site 994484015984 DNA binding site [nucleotide binding] 994484015985 sequence specific DNA binding site [nucleotide binding]; other site 994484015986 putative cAMP binding site [chemical binding]; other site 994484015987 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 994484015988 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 994484015989 active site 994484015990 ribulose/triose binding site [chemical binding]; other site 994484015991 phosphate binding site [ion binding]; other site 994484015992 substrate (anthranilate) binding pocket [chemical binding]; other site 994484015993 product (indole) binding pocket [chemical binding]; other site 994484015994 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 994484015995 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 994484015996 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 994484015997 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 994484015998 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 994484015999 glutamine binding [chemical binding]; other site 994484016000 catalytic triad [active] 994484016001 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 994484016002 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 994484016003 active site 994484016004 catalytic triad [active] 994484016005 oxyanion hole [active] 994484016006 Autotransporter beta-domain; Region: Autotransporter; cl02365 994484016007 anthranilate synthase component I; Provisional; Region: PRK13565 994484016008 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 994484016009 chorismate binding enzyme; Region: Chorismate_bind; cl10555 994484016010 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484016011 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; cl11391 994484016012 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 994484016013 motif II; other site 994484016014 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...; Region: RPE; cd00429 994484016015 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 994484016016 substrate binding site [chemical binding]; other site 994484016017 hexamer interface [polypeptide binding]; other site 994484016018 metal binding site [ion binding]; metal-binding site 994484016019 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484016020 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 994484016021 active site 994484016022 NAD binding site [chemical binding]; other site 994484016023 metal binding site [ion binding]; metal-binding site 994484016024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016025 dimer interface [polypeptide binding]; other site 994484016026 conserved gate region; other site 994484016027 putative PBP binding loops; other site 994484016028 ABC-ATPase subunit interface; other site 994484016029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016030 dimer interface [polypeptide binding]; other site 994484016031 conserved gate region; other site 994484016032 putative PBP binding loops; other site 994484016033 ABC-ATPase subunit interface; other site 994484016034 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484016035 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 994484016036 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484016037 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...; Region: ABC_PotA_N; cd03300 994484016038 Walker A/P-loop; other site 994484016039 ATP binding site [chemical binding]; other site 994484016040 Q-loop/lid; other site 994484016041 ABC transporter signature motif; other site 994484016042 Walker B; other site 994484016043 D-loop; other site 994484016044 H-loop/switch region; other site 994484016045 TOBE domain; Region: TOBE_2; cl01440 994484016046 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484016047 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 994484016048 active site 994484016049 phosphorylation site [posttranslational modification] 994484016050 intermolecular recognition site; other site 994484016051 dimerization interface [polypeptide binding]; other site 994484016052 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...; Region: LuxR_C_like; cd06170 994484016053 DNA binding residues [nucleotide binding] 994484016054 dimerization interface [polypeptide binding]; other site 994484016055 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...; Region: PBPb; cd00134 994484016056 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484016057 substrate binding pocket [chemical binding]; other site 994484016058 membrane-bound complex binding site; other site 994484016059 hinge residues; other site 994484016060 PAS fold; Region: PAS_4; pfam08448 994484016061 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 994484016062 putative active site [active] 994484016063 heme pocket [chemical binding]; other site 994484016064 hypothetical protein; Provisional; Region: PRK13560 994484016065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 994484016066 Histidine kinase; Region: HisKA_3; pfam07730 994484016067 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 994484016068 ATP binding site [chemical binding]; other site 994484016069 Mg2+ binding site [ion binding]; other site 994484016070 G-X-G motif; other site 994484016071 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 994484016072 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 994484016073 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 994484016074 putative metal binding site [ion binding]; other site 994484016075 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...; Region: DnaJ; cd06257 994484016076 HSP70 interaction site [polypeptide binding]; other site 994484016077 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 994484016078 Substrate binding site [chemical binding]; other site 994484016079 metal binding site [ion binding]; metal-binding site 994484016080 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484016081 Phosphotransferase enzyme family; Region: APH; pfam01636 994484016082 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 994484016083 OstA-like protein; Region: OstA; cl00844 994484016084 Organic solvent tolerance protein; Region: OstA_C; pfam04453 994484016085 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 994484016086 SurA N-terminal domain; Region: SurA_N; pfam09312 994484016087 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484016088 PPIC-type PPIASE domain; Region: Rotamase; cl08278 994484016089 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 994484016090 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 994484016091 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; cl12011 994484016092 Protein of unknown function (DUF525); Region: DUF525; cl01119 994484016093 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 994484016094 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 994484016095 active site 994484016096 metal binding site [ion binding]; metal-binding site 994484016097 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 994484016098 active site residue [active] 994484016099 PrkA family serine protein kinase; Provisional; Region: PRK15455 994484016100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016101 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 994484016102 Protein of unknown function (DUF444); Region: DUF444; pfam04285 994484016103 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 994484016104 SpoVR family protein; Provisional; Region: PRK11767 994484016105 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 994484016106 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 994484016107 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 994484016108 active site 994484016109 NTP binding site [chemical binding]; other site 994484016110 metal binding triad [ion binding]; metal-binding site 994484016111 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 994484016112 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484016113 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 994484016114 catalytic center binding site [active] 994484016115 ATP binding site [chemical binding]; other site 994484016116 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 994484016117 homooctamer interface [polypeptide binding]; other site 994484016118 active site 994484016119 Domain of unknown function (DUF205); Region: DUF205; cl00410 994484016120 UGMP family protein; Validated; Region: PRK09604 994484016121 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 994484016122 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 994484016123 DNA primase, catalytic core; Region: dnaG; TIGR01391 994484016124 CHC2 zinc finger; Region: zf-CHC2; cl02597 994484016125 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 994484016126 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 994484016127 active site 994484016128 metal binding site [ion binding]; metal-binding site 994484016129 interdomain interaction site; other site 994484016130 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 994484016131 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 994484016132 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 994484016133 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 994484016134 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 994484016135 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 994484016136 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484016137 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 994484016138 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...; Region: Sigma70_r4; cd06171 994484016139 DNA binding residues [nucleotide binding] 994484016140 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484016141 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...; Region: PBPb; cd00134 994484016142 substrate binding pocket [chemical binding]; other site 994484016143 membrane-bound complex binding site; other site 994484016144 hinge residues; other site 994484016145 PAS domain S-box; Region: sensory_box; TIGR00229 994484016146 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 994484016147 putative active site [active] 994484016148 heme pocket [chemical binding]; other site 994484016149 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 994484016150 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 994484016151 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 994484016152 putative active site [active] 994484016153 heme pocket [chemical binding]; other site 994484016154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484016155 metal binding site [ion binding]; metal-binding site 994484016156 active site 994484016157 I-site; other site 994484016158 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 994484016159 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 994484016160 Phage integrase family; Region: Phage_integrase; pfam00589 994484016161 DNA binding site [nucleotide binding] 994484016162 Int/Topo IB signature motif; other site 994484016163 active site 994484016164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016165 Type IV secretion system proteins; Region: T4SS; cl06849 994484016166 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 994484016167 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 994484016168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016169 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 994484016170 nucleotide binding region [chemical binding]; other site 994484016171 ATP-binding site [chemical binding]; other site 994484016172 TIGR01177 family protein; Region: TIGR01177 994484016173 Protein of unknown function DUF262; Region: DUF262; cl14890 994484016174 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 994484016175 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016176 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 994484016177 dimerization interface [polypeptide binding]; other site 994484016178 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 994484016179 multimer interface [polypeptide binding]; other site 994484016180 heterodimer interface [polypeptide binding]; other site 994484016181 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 994484016182 active site 994484016183 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 994484016184 heterodimer interface [polypeptide binding]; other site 994484016185 active site 994484016186 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484016187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016188 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 994484016189 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484016190 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 994484016191 putative active site [active] 994484016192 catalytic triad [active] 994484016193 putative dimer interface [polypeptide binding]; other site 994484016194 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 994484016195 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 994484016196 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484016197 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484016198 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 994484016199 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 994484016200 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 994484016201 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 994484016202 FeS/SAM binding site; other site 994484016203 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 994484016204 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 994484016205 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 994484016206 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 994484016207 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484016208 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484016209 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484016210 active site 994484016211 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484016212 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484016213 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484016214 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 994484016215 FAD binding site [chemical binding]; other site 994484016216 substrate binding site [chemical binding]; other site 994484016217 catalytic residues [active] 994484016218 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484016219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484016220 metal binding site [ion binding]; metal-binding site 994484016221 active site 994484016222 I-site; other site 994484016223 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484016224 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484016225 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484016226 active site 994484016227 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484016228 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 994484016229 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484016230 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 994484016231 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 994484016232 S-adenosylmethionine binding site [chemical binding]; other site 994484016233 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 994484016234 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 994484016235 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), 8-amino-7-...; Region: KBL_like; cd06454 994484016236 substrate-cofactor binding pocket; other site 994484016237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016238 catalytic residue [active] 994484016239 biotin synthase; Provisional; Region: PRK15108 994484016240 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 994484016241 FeS/SAM binding site; other site 994484016242 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 994484016243 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484016244 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 994484016245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016246 TOBE domain; Region: TOBE_2; cl01440 994484016247 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 994484016248 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484016249 Phosphotransferase enzyme family; Region: APH; pfam01636 994484016250 Predicted permeases [General function prediction only]; Region: RarD; COG2962 994484016251 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 994484016252 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-...; Region: CBS_pair; cl09141 994484016253 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 994484016254 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 994484016255 active site 994484016256 Response regulator receiver domain; Region: Response_reg; pfam00072 994484016257 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 994484016258 active site 994484016259 phosphorylation site [posttranslational modification] 994484016260 intermolecular recognition site; other site 994484016261 dimerization interface [polypeptide binding]; other site 994484016262 potential frameshift: common BLAST hit: gi|77461406|ref|YP_350913.1| cyclic nucleotide-binding (cNMP-bd) protein 994484016263 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; cl00047 994484016264 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-...; Region: CBS_pair; cl09141 994484016265 FOG: CBS domain [General function prediction only]; Region: COG0517 994484016266 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 994484016267 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484016268 metal binding triad; other site 994484016269 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 994484016270 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 994484016271 active site 994484016272 substrate binding site [chemical binding]; other site 994484016273 catalytic site [active] 994484016274 RNA polymerase sigma factor; Reviewed; Region: PRK12523 994484016275 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484016276 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484016277 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484016278 FecR protein; Region: FecR; pfam04773 994484016279 Secretin and TonB N terminus short domain; Region: STN; cl06624 994484016280 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 994484016281 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 994484016282 N-terminal plug; other site 994484016283 ligand-binding site [chemical binding]; other site 994484016284 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484016285 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 994484016286 D-galactonate transporter; Region: 2A0114; TIGR00893 994484016287 putative substrate translocation pore; other site 994484016288 putative glutathione S-transferase; Provisional; Region: PRK10357 994484016289 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 994484016290 putative C-terminal domain interface [polypeptide binding]; other site 994484016291 putative GSH binding site (G-site) [chemical binding]; other site 994484016292 putative dimer interface [polypeptide binding]; other site 994484016293 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 994484016294 dimer interface [polypeptide binding]; other site 994484016295 N-terminal domain interface [polypeptide binding]; other site 994484016296 putative substrate binding pocket (H-site) [chemical binding]; other site 994484016297 Inner membrane protein CreD; Region: CreD; cl01844 994484016298 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 994484016299 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 994484016300 sensory histidine kinase CreC; Provisional; Region: PRK11100 994484016301 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 connected by an extended linker. The...; Region: HAMP; cl01054 994484016302 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 trans-...; Region: HisKA; cd00082 994484016303 dimer interface [polypeptide binding]; other site 994484016304 phosphorylation site [posttranslational modification] 994484016305 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 994484016306 ATP binding site [chemical binding]; other site 994484016307 Mg2+ binding site [ion binding]; other site 994484016308 G-X-G motif; other site 994484016309 DNA-binding response regulator CreB; Provisional; Region: PRK11083 994484016310 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 994484016311 active site 994484016312 phosphorylation site [posttranslational modification] 994484016313 intermolecular recognition site; other site 994484016314 dimerization interface [polypeptide binding]; other site 994484016315 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...; Region: trans_reg_C; cd00383 994484016316 DNA binding site [nucleotide binding] 994484016317 Protein of unknown function (DUF785); Region: DUF785; cl01682 994484016318 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484016319 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 994484016320 putative acyl-acceptor binding pocket; other site 994484016321 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 994484016322 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 994484016323 DNA-binding site [nucleotide binding]; DNA binding site 994484016324 RNA-binding motif; other site 994484016325 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 994484016326 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 994484016327 NAD binding site [chemical binding]; other site 994484016328 catalytic Zn binding site [ion binding]; other site 994484016329 structural Zn binding site [ion binding]; other site 994484016330 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 994484016331 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484016332 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484016333 putative active site [active] 994484016334 putative substrate binding site [chemical binding]; other site 994484016335 putative cosubstrate binding site; other site 994484016336 catalytic site [active] 994484016337 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 994484016338 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 994484016339 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484016340 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 994484016341 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 994484016342 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484016343 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484016344 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...; Region: SHMT; cd00378 994484016345 dimer interface [polypeptide binding]; other site 994484016346 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484016347 active site 994484016348 folate binding site [chemical binding]; other site 994484016349 TraX protein; Region: TraX; cl05434 994484016350 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 994484016351 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 994484016352 tetramer interface [polypeptide binding]; other site 994484016353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016354 catalytic residue [active] 994484016355 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484016356 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 994484016357 FAD binding pocket [chemical binding]; other site 994484016358 FAD binding motif [chemical binding]; other site 994484016359 phosphate binding motif [ion binding]; other site 994484016360 beta-alpha-beta structure motif; other site 994484016361 NAD binding pocket [chemical binding]; other site 994484016362 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 994484016363 catalytic loop [active] 994484016364 iron binding site [ion binding]; other site 994484016365 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484016366 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 994484016367 [2Fe-2S] cluster binding site [ion binding]; other site 994484016368 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 994484016369 putative alpha subunit interface [polypeptide binding]; other site 994484016370 putative active site [active] 994484016371 putative substrate binding site [chemical binding]; other site 994484016372 Fe binding site [ion binding]; other site 994484016373 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 994484016374 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 994484016375 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484016376 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484016377 triacylglycerol lipase; Region: PLN02872 994484016378 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 994484016379 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 994484016380 Ligand Binding Site [chemical binding]; other site 994484016381 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; cd01985 994484016382 Ligand binding site [chemical binding]; other site 994484016383 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 994484016384 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 994484016385 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 994484016386 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 994484016387 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 994484016388 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 994484016389 putative active site [active] 994484016390 putative FMN binding site [chemical binding]; other site 994484016391 putative substrate binding site [chemical binding]; other site 994484016392 putative catalytic residue [active] 994484016393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016394 Heme NO binding; Region: HNOB; cl15268 994484016395 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 994484016396 active site 994484016397 dimer interface [polypeptide binding]; other site 994484016398 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 994484016399 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 994484016400 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 994484016401 non-specific DNA binding site [nucleotide binding]; other site 994484016402 salt bridge; other site 994484016403 sequence-specific DNA binding site [nucleotide binding]; other site 994484016404 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 994484016405 Archaeal ATPase; Region: Arch_ATPase; pfam01637 994484016406 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484016407 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484016408 conserved cys residue [active] 994484016409 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484016410 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484016411 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 994484016412 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 994484016413 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484016414 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484016415 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...; Region: 4HBT; cd00586 994484016416 active site 994484016417 Protein of unknown function (DUF971); Region: DUF971; cl01414 994484016418 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 994484016419 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cd00250 994484016420 substrate binding pocket [chemical binding]; other site 994484016421 active site 994484016422 iron coordination sites [ion binding]; other site 994484016423 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484016424 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484016425 conserved cys residue [active] 994484016426 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484016427 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 994484016428 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 994484016429 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 994484016430 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484016431 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 994484016432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016433 dimer interface [polypeptide binding]; other site 994484016434 conserved gate region; other site 994484016435 putative PBP binding loops; other site 994484016436 ABC-ATPase subunit interface; other site 994484016437 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 994484016438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016439 Walker A/P-loop; other site 994484016440 ATP binding site [chemical binding]; other site 994484016441 Q-loop/lid; other site 994484016442 ABC transporter signature motif; other site 994484016443 Walker B; other site 994484016444 D-loop; other site 994484016445 H-loop/switch region; other site 994484016446 transcriptional regulator BetI; Validated; Region: PRK00767 994484016447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484016448 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484016449 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 994484016450 tetrameric interface [polypeptide binding]; other site 994484016451 NAD binding site [chemical binding]; other site 994484016452 catalytic residues [active] 994484016453 choline dehydrogenase; Validated; Region: PRK02106 994484016454 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484016455 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 994484016456 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 994484016457 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 994484016458 putative transporter; Provisional; Region: PRK10504 994484016459 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 994484016460 putative substrate translocation pore; other site 994484016461 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 994484016462 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 994484016463 ATP binding site [chemical binding]; other site 994484016464 Mg++ binding site [ion binding]; other site 994484016465 motif III; other site 994484016466 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 994484016467 nucleotide binding region [chemical binding]; other site 994484016468 ATP-binding site [chemical binding]; other site 994484016469 DbpA RNA binding domain; Region: DbpA; pfam03880 994484016470 Predicted flavoproteins [General function prediction only]; Region: COG2081 994484016471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016472 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 994484016473 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 994484016474 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...; Region: PBPb; cd00134 994484016475 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484016476 substrate binding pocket [chemical binding]; other site 994484016477 membrane-bound complex binding site; other site 994484016478 hinge residues; other site 994484016479 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484016480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484016481 Coenzyme A binding pocket [chemical binding]; other site 994484016482 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 994484016483 Protein of unknown function DUF45; Region: DUF45; cl00636 994484016484 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 994484016485 active site 994484016486 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 994484016487 phosphorylation site [posttranslational modification] 994484016488 intermolecular recognition site; other site 994484016489 dimerization interface [polypeptide binding]; other site 994484016490 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 994484016491 putative active site [active] 994484016492 heme pocket [chemical binding]; other site 994484016493 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484016494 metal binding site [ion binding]; metal-binding site 994484016495 active site 994484016496 I-site; other site 994484016497 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 994484016498 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484016499 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484016500 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484016501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484016502 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484016503 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484016504 hypothetical protein; Provisional; Region: PRK08185 994484016505 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...; Region: TBP_aldolase_IIB; cd00947 994484016506 intersubunit interface [polypeptide binding]; other site 994484016507 active site 994484016508 zinc binding site [ion binding]; other site 994484016509 Na+ binding site [ion binding]; other site 994484016510 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 994484016511 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; cl00198 994484016512 substrate binding site [chemical binding]; other site 994484016513 hinge regions; other site 994484016514 ADP binding site [chemical binding]; other site 994484016515 catalytic site [active] 994484016516 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 994484016517 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 994484016518 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484016519 transketolase; Reviewed; Region: PRK12753 994484016520 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 994484016521 TPP-binding site [chemical binding]; other site 994484016522 dimer interface [polypeptide binding]; other site 994484016523 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 994484016524 PYR/PP interface [polypeptide binding]; other site 994484016525 dimer interface [polypeptide binding]; other site 994484016526 TPP binding site [chemical binding]; other site 994484016527 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484016528 Predicted transcriptional regulators [Transcription]; Region: COG1777 994484016529 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 994484016530 putative DNA binding site [nucleotide binding]; other site 994484016531 dimerization interface [polypeptide binding]; other site 994484016532 putative Zn2+ binding site [ion binding]; other site 994484016533 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 994484016534 S-adenosylmethionine binding site [chemical binding]; other site 994484016535 S-adenosylmethionine synthetase; Validated; Region: PRK05250 994484016536 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 994484016537 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 994484016538 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 994484016539 LysE type translocator; Region: LysE; cl00565 994484016540 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 994484016541 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 994484016542 nucleotide binding pocket [chemical binding]; other site 994484016543 K-X-D-G motif; other site 994484016544 catalytic site [active] 994484016545 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 994484016546 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 994484016547 Cytochrome C'; Region: Cytochrom_C_2; cl01610 994484016548 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 994484016549 MltA specific insert domain; Region: MltA; cl08398 994484016550 3D domain; Region: 3D; cl01439 994484016551 MAPEG family; Region: MAPEG; cl09190 994484016552 EamA-like transporter family; Region: EamA; cl01037 994484016553 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484016554 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 994484016555 putative substrate translocation pore; other site 994484016556 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 994484016557 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...; Region: BFIT_BACH; cd03442 994484016558 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 994484016559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016560 oligomerization interface [polypeptide binding]; other site 994484016561 active site 994484016562 NAD+ binding site [chemical binding]; other site 994484016563 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 994484016564 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...; Region: MTHFR; cd00537 994484016565 FAD binding site [chemical binding]; other site 994484016566 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...; Region: PBPb; cd00134 994484016567 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484016568 substrate binding pocket [chemical binding]; other site 994484016569 membrane-bound complex binding site; other site 994484016570 hinge residues; other site 994484016571 helicase 45; Provisional; Region: PTZ00424 994484016572 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 994484016573 ATP binding site [chemical binding]; other site 994484016574 Mg++ binding site [ion binding]; other site 994484016575 motif III; other site 994484016576 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 994484016577 nucleotide binding region [chemical binding]; other site 994484016578 ATP-binding site [chemical binding]; other site 994484016579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484016580 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484016581 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484016582 YceI-like domain; Region: YceI; cl01001 994484016583 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 994484016584 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 994484016585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016586 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 994484016587 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 994484016588 inhibitor-cofactor binding pocket; inhibition site 994484016589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016590 catalytic residue [active] 994484016591 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 994484016592 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 994484016593 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...; Region: PBPb; cd00134 994484016594 substrate binding pocket [chemical binding]; other site 994484016595 membrane-bound complex binding site; other site 994484016596 hinge residues; other site 994484016597 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 994484016598 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484016599 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 994484016600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016601 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 994484016602 dimerization interface [polypeptide binding]; other site 994484016603 Haemolysin-III related; Region: HlyIII; cl03831 994484016604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484016605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016606 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 994484016607 putative dimerization interface [polypeptide binding]; other site 994484016608 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 994484016609 Malonate transporter MadL subunit; Region: MadL; cl04273 994484016610 Acyl transferase domain; Region: Acyl_transf_1; cl08282 994484016611 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 994484016612 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 994484016613 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484016614 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 994484016615 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 994484016616 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 994484016617 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 994484016618 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484016619 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484016620 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 994484016621 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484016622 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 994484016623 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 994484016624 putative binding surface; other site 994484016625 active site 994484016626 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 994484016627 putative binding surface; other site 994484016628 active site 994484016629 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484016630 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 994484016631 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 994484016632 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 994484016633 active site 994484016634 phosphorylation site [posttranslational modification] 994484016635 intermolecular recognition site; other site 994484016636 dimerization interface [polypeptide binding]; other site 994484016637 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484016638 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484016639 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 994484016640 Response regulator receiver domain; Region: Response_reg; pfam00072 994484016641 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 994484016642 active site 994484016643 phosphorylation site [posttranslational modification] 994484016644 intermolecular recognition site; other site 994484016645 dimerization interface [polypeptide binding]; other site 994484016646 Response regulator receiver domain; Region: Response_reg; pfam00072 994484016647 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 994484016648 active site 994484016649 phosphorylation site [posttranslational modification] 994484016650 intermolecular recognition site; other site 994484016651 dimerization interface [polypeptide binding]; other site 994484016652 glutathione synthetase; Provisional; Region: PRK05246 994484016653 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 994484016654 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484016655 Gram-negative bacterial tonB protein; Region: TonB; cl10048 994484016656 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 994484016657 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 994484016658 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484016659 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 994484016660 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 994484016661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016662 dihydroorotase; Validated; Region: pyrC; PRK09357 994484016663 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 994484016664 active site 994484016665 TM2 domain; Region: TM2; cl00984 994484016666 TM2 domain; Region: TM2; cl00984 994484016667 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 994484016668 NlpC/P60 family; Region: NLPC_P60; cl11438 994484016669 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 994484016670 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 994484016671 Walker A motif; other site 994484016672 ATP binding site [chemical binding]; other site 994484016673 Walker B motif; other site 994484016674 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 994484016675 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484016676 catalytic residue [active] 994484016677 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 994484016678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016679 YGGT family; Region: YGGT; cl00508 994484016680 YGGT family; Region: YGGT; cl00508 994484016681 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 994484016682 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 994484016683 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 994484016684 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 994484016685 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 994484016686 S-adenosylmethionine binding site [chemical binding]; other site 994484016687 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 Ham1-...; Region: HAM1; cd00515 994484016688 active site 994484016689 dimerization interface [polypeptide binding]; other site 994484016690 HemN family oxidoreductase; Provisional; Region: PRK05660 994484016691 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 994484016692 FeS/SAM binding site; other site 994484016693 HemN C-terminal region; Region: HemN_C; pfam06969 994484016694 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 994484016695 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; cl12011 994484016696 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 994484016697 ThiS interaction site; other site 994484016698 putative active site [active] 994484016699 tetramer interface [polypeptide binding]; other site 994484016700 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 994484016701 thiS-thiF/thiG interaction site; other site 994484016702 Protein of unknown function (DUF423); Region: DUF423; cl01008 994484016703 Transglycosylase; Region: Transgly; cl07896 994484016704 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 994484016705 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484016706 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484016707 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 994484016708 FtsX-like permease family; Region: FtsX; pfam02687 994484016709 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 994484016710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016711 Walker A/P-loop; other site 994484016712 ATP binding site [chemical binding]; other site 994484016713 Q-loop/lid; other site 994484016714 ABC transporter signature motif; other site 994484016715 Walker B; other site 994484016716 D-loop; other site 994484016717 H-loop/switch region; other site 994484016718 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 994484016719 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 994484016720 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 994484016721 P loop; other site 994484016722 GTP binding site [chemical binding]; other site 994484016723 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 994484016724 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 994484016725 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484016726 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 994484016727 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484016728 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 994484016729 S-adenosylmethionine binding site [chemical binding]; other site 994484016730 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 994484016731 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 994484016732 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...; Region: TST_Repeat_1; cd01448 994484016733 active site residue [active] 994484016734 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 994484016735 active site residue [active] 994484016736 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484016737 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484016738 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 994484016739 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 994484016740 NAD(P) binding site [chemical binding]; other site 994484016741 catalytic residues [active] 994484016742 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484016743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016744 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484016745 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 994484016746 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 994484016747 active site 994484016748 (T/H)XGH motif; other site 994484016749 ferredoxin; Validated; Region: PRK07118 994484016750 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 994484016751 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 994484016752 DNA binding site [nucleotide binding] 994484016753 catalytic residue [active] 994484016754 H2TH interface [polypeptide binding]; other site 994484016755 putative catalytic residues [active] 994484016756 turnover-facilitating residue; other site 994484016757 intercalation triad [nucleotide binding]; other site 994484016758 8OG recognition residue [nucleotide binding]; other site 994484016759 putative reading head residues; other site 994484016760 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 994484016761 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 994484016762 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484016763 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484016764 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 994484016765 proposed catalytic triad [active] 994484016766 conserved cys residue [active] 994484016767 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 994484016768 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 994484016769 S-adenosylmethionine binding site [chemical binding]; other site 994484016770 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 994484016771 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 994484016772 putative substrate translocation pore; other site 994484016773 Dehydratase family; Region: ILVD_EDD; cl00340 994484016774 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 994484016775 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484016776 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 5,10-...; Region: DHFR; cd00209 994484016777 folate binding site [chemical binding]; other site 994484016778 NADP+ binding site [chemical binding]; other site 994484016779 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 994484016780 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 994484016781 G1 box; other site 994484016782 GTP/Mg2+ binding site [chemical binding]; other site 994484016783 Switch I region; other site 994484016784 G2 box; other site 994484016785 Switch II region; other site 994484016786 G3 box; other site 994484016787 G4 box; other site 994484016788 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 994484016789 Protein of unknown function (DUF523); Region: DUF523; cl00733 994484016790 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 994484016791 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 994484016792 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 994484016793 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484016794 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...; Region: AAA; cd00009 994484016795 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484016796 Walker A motif; other site 994484016797 ATP binding site [chemical binding]; other site 994484016798 Walker B motif; other site 994484016799 arginine finger; other site 994484016800 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 994484016801 HrpZ; Region: Hairpins; pfam04877 994484016802 Type III secretion needle MxiH like; Region: MxiH; cl09641 994484016803 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 994484016804 HrpE/YscL/FliH and V-type ATPase subunit E; Region: HrpE; pfam06188 994484016805 HrpF protein; Region: HrpF; pfam06266 994484016806 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 994484016807 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484016808 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 994484016809 DspF/AvrF protein; Region: DspF; pfam06704 994484016810 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 994484016811 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 994484016812 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 994484016813 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 994484016814 FliP family; Region: FliP; cl00593 994484016815 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484016816 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 994484016817 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 994484016818 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016819 Walker A motif; other site 994484016820 ATP binding site [chemical binding]; other site 994484016821 Walker B motif; other site 994484016822 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 994484016823 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 994484016824 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 994484016825 FHIPEP family; Region: FHIPEP; pfam00771 994484016826 HrpJ-like domain; Region: HrpJ; pfam07201 994484016827 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 994484016828 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484016829 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 994484016830 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 994484016831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484016832 Cytochrome P450; Region: p450; cl12078 994484016833 Beta-lactamase; Region: Beta-lactamase; cl01009 994484016834 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 994484016835 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 994484016836 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484016837 catalytic residue [active] 994484016838 Protein of unknown function (DUF2596); Region: DUF2596; pfam10770 994484016839 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 994484016840 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 four-...; Region: Ntn_hydrolase; cl00467 994484016841 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 7-...; Region: Ntn_PGA_like; cd03747 994484016842 active site 994484016843 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484016844 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484016845 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016846 dimer interface [polypeptide binding]; other site 994484016847 conserved gate region; other site 994484016848 putative PBP binding loops; other site 994484016849 ABC-ATPase subunit interface; other site 994484016850 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484016851 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016852 dimer interface [polypeptide binding]; other site 994484016853 conserved gate region; other site 994484016854 putative PBP binding loops; other site 994484016855 ABC-ATPase subunit interface; other site 994484016856 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 994484016857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016858 Walker A/P-loop; other site 994484016859 ATP binding site [chemical binding]; other site 994484016860 Q-loop/lid; other site 994484016861 ABC transporter signature motif; other site 994484016862 Walker B; other site 994484016863 D-loop; other site 994484016864 H-loop/switch region; other site 994484016865 TOBE domain; Region: TOBE_2; cl01440 994484016866 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484016867 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 994484016868 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484016869 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 994484016870 putative aminotransferase; Validated; Region: PRK07480 994484016871 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 994484016872 inhibitor-cofactor binding pocket; inhibition site 994484016873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016874 catalytic residue [active] 994484016875 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484016876 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484016877 Peptidase C26; Region: Peptidase_C26; pfam07722 994484016878 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 994484016879 catalytic triad [active] 994484016880 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484016881 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484016882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484016883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484016884 TOBE domain; Region: TOBE_2; cl01440 994484016885 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 994484016886 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 994484016887 Walker A/P-loop; other site 994484016888 ATP binding site [chemical binding]; other site 994484016889 Q-loop/lid; other site 994484016890 ABC transporter signature motif; other site 994484016891 Walker B; other site 994484016892 D-loop; other site 994484016893 H-loop/switch region; other site 994484016894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016895 dimer interface [polypeptide binding]; other site 994484016896 conserved gate region; other site 994484016897 putative PBP binding loops; other site 994484016898 ABC-ATPase subunit interface; other site 994484016899 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 994484016900 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 994484016901 active site 994484016902 dimer interface [polypeptide binding]; other site 994484016903 non-prolyl cis peptide bond; other site 994484016904 insertion regions; other site 994484016905 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484016906 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...; Region: PBPb; cd00134 994484016907 substrate binding pocket [chemical binding]; other site 994484016908 membrane-bound complex binding site; other site 994484016909 hinge residues; other site 994484016910 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 994484016911 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 994484016912 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 994484016913 dimer interface [polypeptide binding]; other site 994484016914 decamer (pentamer of dimers) interface [polypeptide binding]; other site 994484016915 catalytic triad [active] 994484016916 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 994484016917 active site 994484016918 NTP binding site [chemical binding]; other site 994484016919 metal binding triad [ion binding]; metal-binding site 994484016920 antibiotic binding site [chemical binding]; other site 994484016921 outer membrane porin, OprD family; Region: OprD; pfam03573 994484016922 N-acetylglutamate synthase; Validated; Region: PRK05279 994484016923 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 994484016924 putative feedback inhibition sensing region; other site 994484016925 putative nucleotide binding site [chemical binding]; other site 994484016926 putative substrate binding site [chemical binding]; other site 994484016927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484016928 acetylornithine deacetylase; Provisional; Region: PRK05111 994484016929 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484016930 metal binding site [ion binding]; metal-binding site 994484016931 putative dimer interface [polypeptide binding]; other site 994484016932 Uncharacterized conserved protein [Function unknown]; Region: COG3025 994484016933 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 994484016934 putative active site [active] 994484016935 putative metal binding residues [ion binding]; other site 994484016936 signature motif; other site 994484016937 putative triphosphate binding site [ion binding]; other site 994484016938 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484016939 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484016940 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 994484016941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016942 Walker A motif; other site 994484016943 ATP binding site [chemical binding]; other site 994484016944 Walker B motif; other site 994484016945 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 994484016946 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 994484016947 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 994484016948 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 994484016949 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 L-...; Region: GCS_H; cd06848 994484016950 lipoyl attachment site [posttranslational modification]; other site 994484016951 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 994484016952 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484016953 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 994484016954 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484016955 dimer interface [polypeptide binding]; other site 994484016956 conserved gate region; other site 994484016957 putative PBP binding loops; other site 994484016958 ABC-ATPase subunit interface; other site 994484016959 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 994484016960 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 994484016961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016963 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 994484016964 proline aminopeptidase P II; Provisional; Region: PRK10879 994484016965 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 994484016966 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 994484016967 active site 994484016968 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 994484016969 TIGR02449 family protein; Region: TIGR02449 994484016970 Cell division protein ZapA; Region: ZapA; cl01146 994484016971 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 994484016972 EVE domain; Region: EVE; cl00728 994484016973 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 994484016974 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...; Region: Biotinyl_lipoyl_domains; cl11404 994484016975 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 994484016976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016977 Walker A/P-loop; other site 994484016978 ATP binding site [chemical binding]; other site 994484016979 Q-loop/lid; other site 994484016980 ABC transporter signature motif; other site 994484016981 Walker B; other site 994484016982 D-loop; other site 994484016983 H-loop/switch region; other site 994484016984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484016985 Walker A/P-loop; other site 994484016986 ATP binding site [chemical binding]; other site 994484016987 Q-loop/lid; other site 994484016988 ABC transporter signature motif; other site 994484016989 Walker B; other site 994484016990 D-loop; other site 994484016991 H-loop/switch region; other site 994484016992 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 994484016993 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484016994 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484016995 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 994484016996 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484016997 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 994484016998 NAD(P) binding site [chemical binding]; other site 994484016999 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 994484017000 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 994484017001 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 994484017002 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 994484017003 putative active site pocket [active] 994484017004 dimerization interface [polypeptide binding]; other site 994484017005 putative catalytic residue [active] 994484017006 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 994484017007 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 994484017008 catalytic loop [active] 994484017009 iron binding site [ion binding]; other site 994484017010 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 994484017011 FAD binding pocket [chemical binding]; other site 994484017012 FAD binding motif [chemical binding]; other site 994484017013 phosphate binding motif [ion binding]; other site 994484017014 beta-alpha-beta structure motif; other site 994484017015 NAD binding pocket [chemical binding]; other site 994484017016 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 994484017017 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 994484017018 transcription termination factor Rho; Provisional; Region: rho; PRK09376 994484017019 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 994484017020 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...; Region: Rho_CSD; cd04459 994484017021 RNA binding site [nucleotide binding]; other site 994484017022 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...; Region: rho_factor; cd01128 994484017023 multimer interface [polypeptide binding]; other site 994484017024 Walker A motif; other site 994484017025 ATP binding site [chemical binding]; other site 994484017026 Walker B motif; other site 994484017027 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 994484017028 catalytic residues [active] 994484017029 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484017030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484017031 DNA-binding site [nucleotide binding]; DNA binding site 994484017032 FCD domain; Region: FCD; cl11656 994484017033 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484017034 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...; Region: PBPb; cd00134 994484017035 substrate binding pocket [chemical binding]; other site 994484017036 membrane-bound complex binding site; other site 994484017037 hinge residues; other site 994484017038 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484017039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484017040 dimer interface [polypeptide binding]; other site 994484017041 conserved gate region; other site 994484017042 putative PBP binding loops; other site 994484017043 ABC-ATPase subunit interface; other site 994484017044 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484017045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484017046 dimer interface [polypeptide binding]; other site 994484017047 conserved gate region; other site 994484017048 putative PBP binding loops; other site 994484017049 ABC-ATPase subunit interface; other site 994484017050 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484017051 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; Region: ABC_HisP_GlnQ_permeases; cd03262 994484017052 Walker A/P-loop; other site 994484017053 ATP binding site [chemical binding]; other site 994484017054 Q-loop/lid; other site 994484017055 ABC transporter signature motif; other site 994484017056 Walker B; other site 994484017057 D-loop; other site 994484017058 H-loop/switch region; other site 994484017059 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 994484017060 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 994484017061 Polyphosphate kinase; Region: PP_kinase; pfam02503 994484017062 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 994484017063 putative active site [active] 994484017064 catalytic site [active] 994484017065 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 994484017066 putative domain interface [polypeptide binding]; other site 994484017067 putative active site [active] 994484017068 catalytic site [active] 994484017069 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 994484017070 dimer interface [polypeptide binding]; other site 994484017071 allosteric magnesium binding site [ion binding]; other site 994484017072 active site 994484017073 aspartate-rich active site metal binding site; other site 994484017074 Schiff base residues; other site 994484017075 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 994484017076 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 994484017077 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 994484017078 conserved cys residue [active] 994484017079 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 994484017080 Cytochrome c; Region: Cytochrom_C; cl11414 994484017081 Iron permease FTR1 family; Region: FTR1; cl00475 994484017082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 994484017083 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 994484017084 putative dimer interface [polypeptide binding]; other site 994484017085 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 994484017086 LysE type translocator; Region: LysE; cl00565 994484017087 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484017088 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 994484017089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484017090 Walker A/P-loop; other site 994484017091 ATP binding site [chemical binding]; other site 994484017092 Q-loop/lid; other site 994484017093 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...; Region: ABCF_EF-3; cd03221 994484017094 ABC transporter signature motif; other site 994484017095 Walker B; other site 994484017096 D-loop; other site 994484017097 ABC transporter; Region: ABC_tran_2; pfam12848 994484017098 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...; Region: ABCF_EF-3; cd03221 994484017099 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 994484017100 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 994484017101 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 994484017102 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 994484017103 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 994484017104 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 994484017105 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 994484017106 HemY protein N-terminus; Region: HemY_N; pfam07219 994484017107 uroporphyrinogen-III synthase; Validated; Region: PRK05752 994484017108 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...; Region: HemD; cd06578 994484017109 active site 994484017110 HemX; Region: HemX; cl14667 994484017111 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 994484017112 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 994484017113 domain interfaces; other site 994484017114 active site 994484017115 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 994484017116 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 994484017117 active site 994484017118 phosphorylation site [posttranslational modification] 994484017119 intermolecular recognition site; other site 994484017120 LytTr DNA-binding domain; Region: LytTR; cl04498 994484017121 argininosuccinate lyase; Provisional; Region: PRK00855 994484017122 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 994484017123 active sites [active] 994484017124 tetramer interface [polypeptide binding]; other site 994484017125 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484017126 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 994484017127 C-terminal domain interface [polypeptide binding]; other site 994484017128 GSH binding site (G-site) [chemical binding]; other site 994484017129 dimer interface [polypeptide binding]; other site 994484017130 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 994484017131 putative N-terminal domain interface [polypeptide binding]; other site 994484017132 putative dimer interface [polypeptide binding]; other site 994484017133 putative substrate binding pocket (H-site) [chemical binding]; other site 994484017134 Phosphate-starvation-inducible E; Region: PsiE; cl01264 994484017135 adenylate cyclase; Provisional; Region: cyaA; PRK09450 994484017136 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 994484017137 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 994484017138 adenylate cyclase; Provisional; Region: cyaA; PRK09450 994484017139 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 994484017140 C-term; Region: GreA_GreB; pfam01272 994484017141 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 994484017142 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 994484017143 putative iron binding site [ion binding]; other site 994484017144 diaminopimelate decarboxylase; Region: lysA; TIGR01048 994484017145 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 994484017146 active site 994484017147 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484017148 substrate binding site [chemical binding]; other site 994484017149 catalytic residues [active] 994484017150 dimer interface [polypeptide binding]; other site 994484017151 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 994484017152 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 994484017153 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 994484017154 Protein of unknown function, DUF484; Region: DUF484; cl01228 994484017155 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 994484017156 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 994484017157 DNA binding site [nucleotide binding] 994484017158 Int/Topo IB signature motif; other site 994484017159 active site 994484017160 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484017161 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 994484017162 motif II; other site 994484017163 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 994484017164 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 994484017165 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 994484017166 Membrane fusogenic activity; Region: BMFP; cl01115 994484017167 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 994484017168 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 994484017169 ATP binding site [chemical binding]; other site 994484017170 Mg2+ binding site [ion binding]; other site 994484017171 G-X-G motif; other site 994484017172 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 994484017173 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484017174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484017175 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 994484017176 active site 994484017177 catalytic residues [active] 994484017178 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484017179 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484017180 dimerization interface [polypeptide binding]; other site 994484017181 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484017182 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484017183 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484017184 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 994484017185 dimerization interface [polypeptide binding]; other site 994484017186 substrate binding pocket [chemical binding]; other site 994484017187 multidrug efflux protein NorA; Provisional; Region: PRK00187 994484017188 MatE; Region: MatE; cl10513 994484017189 MatE; Region: MatE; cl10513 994484017190 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484017191 metal binding site [ion binding]; metal-binding site 994484017192 active site 994484017193 I-site; other site 994484017194 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 994484017195 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 994484017196 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484017197 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484017198 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 994484017199 Cytochrome c; Region: Cytochrom_C; cl11414 994484017200 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 994484017201 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 994484017202 non-specific DNA binding site [nucleotide binding]; other site 994484017203 salt bridge; other site 994484017204 sequence-specific DNA binding site [nucleotide binding]; other site 994484017205 Cupin domain; Region: Cupin_2; cl09118 994484017206 alanine racemase; Reviewed; Region: dadX; PRK03646 994484017207 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 994484017208 active site 994484017209 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484017210 substrate binding site [chemical binding]; other site 994484017211 catalytic residues [active] 994484017212 dimer interface [polypeptide binding]; other site 994484017213 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 994484017214 homotrimer interaction site [polypeptide binding]; other site 994484017215 putative active site [active] 994484017216 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484017217 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 994484017218 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 994484017219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484017220 Flagellin N-methylase; Region: FliB; cl00497 994484017221 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 994484017222 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484017223 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 994484017224 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 994484017225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484017226 DNA-binding site [nucleotide binding]; DNA binding site 994484017227 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 994484017228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484017229 homodimer interface [polypeptide binding]; other site 994484017230 catalytic residue [active] 994484017231 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 994484017232 putative active site [active] 994484017233 catalytic site [active] 994484017234 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 994484017235 putative active site [active] 994484017236 catalytic site [active] 994484017237 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 994484017238 putative substrate translocation pore; other site 994484017239 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484017240 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 994484017241 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 994484017242 NAD(P) binding site [chemical binding]; other site 994484017243 catalytic residues [active] 994484017244 Cupin domain; Region: Cupin_2; cl09118 994484017245 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 994484017246 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 994484017247 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484017248 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484017249 peptide binding site [polypeptide binding]; other site 994484017250 hypothetical protein; Reviewed; Region: PRK00024 994484017251 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 994484017252 MPN+ (JAMM) motif; other site 994484017253 Zinc-binding site [ion binding]; other site 994484017254 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 994484017255 Flavoprotein; Region: Flavoprotein; cl08021 994484017256 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 994484017257 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 994484017258 trimer interface [polypeptide binding]; other site 994484017259 active site 994484017260 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 994484017261 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 994484017262 active site 994484017263 substrate binding site [chemical binding]; other site 994484017264 metal binding site [ion binding]; metal-binding site 994484017265 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...; Region: AAK_NAGK-C; cd04250 994484017266 feedback inhibition sensing region; other site 994484017267 homohexameric interface [polypeptide binding]; other site 994484017268 nucleotide binding site [chemical binding]; other site 994484017269 N-acetyl-L-glutamate binding site [chemical binding]; other site 994484017270 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 994484017271 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 994484017272 putative active site [active] 994484017273 putative DNA binding site [nucleotide binding]; other site 994484017274 putative phosphate binding site [ion binding]; other site 994484017275 putative catalytic site [active] 994484017276 metal binding site A [ion binding]; metal-binding site 994484017277 putative AP binding site [nucleotide binding]; other site 994484017278 putative metal binding site B [ion binding]; other site 994484017279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 994484017280 ribonuclease PH; Reviewed; Region: rph; PRK00173 994484017281 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 994484017282 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 994484017283 hypothetical protein; Provisional; Region: PRK11820 994484017284 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 994484017285 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 994484017286 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...; Region: GMPK; cd00071 994484017287 catalytic site [active] 994484017288 G-X2-G-X-G-K; other site 994484017289 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 994484017290 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 994484017291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484017292 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 994484017293 synthetase active site [active] 994484017294 NTP binding site [chemical binding]; other site 994484017295 metal binding site [ion binding]; metal-binding site 994484017296 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...; Region: TGS_RelA_SpoT; cd01668 994484017297 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 994484017298 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 994484017299 homotrimer interaction site [polypeptide binding]; other site 994484017300 putative active site [active] 994484017301 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484017302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017303 NAD(P) binding site [chemical binding]; other site 994484017304 active site 994484017305 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484017306 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 994484017307 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 994484017308 Gram-negative bacterial tonB protein; Region: TonB; cl10048 994484017309 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 994484017310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484017311 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 994484017312 dimerization interface [polypeptide binding]; other site 994484017313 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 994484017314 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 four-...; Region: RecG_wedge_OBF; cd04488 994484017315 generic binding surface II; other site 994484017316 ssDNA binding site; other site 994484017317 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 994484017318 ATP binding site [chemical binding]; other site 994484017319 putative Mg++ binding site [ion binding]; other site 994484017320 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 994484017321 nucleotide binding region [chemical binding]; other site 994484017322 ATP-binding site [chemical binding]; other site 994484017323 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; cd04332 994484017324 putative deacylase active site [active] 994484017325 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484017326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 994484017327 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 994484017328 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 994484017329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484017330 Walker A/P-loop; other site 994484017331 ATP binding site [chemical binding]; other site 994484017332 Q-loop/lid; other site 994484017333 ABC transporter signature motif; other site 994484017334 Walker B; other site 994484017335 D-loop; other site 994484017336 H-loop/switch region; other site 994484017337 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 994484017338 Catalytic domain of Protein Kinases; Region: PKc; cd00180 994484017339 active site 994484017340 ATP binding site [chemical binding]; other site 994484017341 substrate binding site [chemical binding]; other site 994484017342 activation loop (A-loop); other site 994484017343 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 994484017344 metal ion-dependent adhesion site (MIDAS); other site 994484017345 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 994484017346 Protein phosphatase 2C; Region: PP2C; pfam00481 994484017347 Active site [active] 994484017348 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 994484017349 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 994484017350 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 994484017351 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 994484017352 hypothetical protein; Provisional; Region: PRK07033 994484017353 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 994484017354 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484017355 ligand binding site [chemical binding]; other site 994484017356 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 994484017357 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 994484017358 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 994484017359 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 994484017360 phosphopeptide binding site; other site 994484017361 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 994484017362 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 994484017363 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 994484017364 Protein of unknown function (DUF770); Region: DUF770; cl01402 994484017365 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 994484017366 Protein of unknown function (DUF877); Region: DUF877; pfam05943 994484017367 Protein of unknown function (DUF796); Region: DUF796; cl01226 994484017368 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 994484017369 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 994484017370 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 994484017371 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 994484017372 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 994484017373 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...; Region: AAA; cd00009 994484017374 Walker A motif; other site 994484017375 ATP binding site [chemical binding]; other site 994484017376 Walker B motif; other site 994484017377 arginine finger; other site 994484017378 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...; Region: AAA; cd00009 994484017379 Walker A motif; other site 994484017380 ATP binding site [chemical binding]; other site 994484017381 Walker B motif; other site 994484017382 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 994484017383 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484017384 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 994484017385 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 994484017386 Uncharacterized conserved protein [Function unknown]; Region: COG4104 994484017387 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484017388 RHS Repeat; Region: RHS_repeat; cl11982 994484017389 RHS Repeat; Region: RHS_repeat; cl11982 994484017390 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484017391 RHS Repeat; Region: RHS_repeat; cl11982 994484017392 RHS Repeat; Region: RHS_repeat; cl11982 994484017393 RHS protein; Region: RHS; pfam03527 994484017394 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484017395 RES domain; Region: RES; cl02411 994484017396 Uncharacterized conserved protein [Function unknown]; Region: COG4104 994484017397 RHS Repeat; Region: RHS_repeat; cl11982 994484017398 RHS Repeat; Region: RHS_repeat; cl11982 994484017399 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484017400 RHS Repeat; Region: RHS_repeat; cl11982 994484017401 RHS Repeat; Region: RHS_repeat; cl11982 994484017402 RHS protein; Region: RHS; pfam03527 994484017403 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484017404 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 994484017405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484017406 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 994484017407 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 994484017408 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484017409 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 994484017410 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 994484017411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484017412 DNA-binding site [nucleotide binding]; DNA binding site 994484017413 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 994484017414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484017415 homodimer interface [polypeptide binding]; other site 994484017416 catalytic residue [active] 994484017417 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484017418 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484017419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484017420 Coenzyme A binding pocket [chemical binding]; other site 994484017421 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484017422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 994484017423 OTU-like cysteine protease; Region: OTU; cl14910 994484017424 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 994484017425 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 994484017426 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...; Region: PBPb; cd00134 994484017427 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484017428 substrate binding pocket [chemical binding]; other site 994484017429 membrane-bound complex binding site; other site 994484017430 hinge residues; other site 994484017431 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484017432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 994484017433 dimer interface [polypeptide binding]; other site 994484017434 conserved gate region; other site 994484017435 putative PBP binding loops; other site 994484017436 ABC-ATPase subunit interface; other site 994484017437 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 994484017438 Autotransporter beta-domain; Region: Autotransporter; cl02365 994484017439 pyruvate carboxylase subunit B; Validated; Region: PRK09282 994484017440 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 994484017441 active site 994484017442 catalytic residues [active] 994484017443 metal binding site [ion binding]; metal-binding site 994484017444 homodimer binding site [polypeptide binding]; other site 994484017445 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 994484017446 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 994484017447 carboxyltransferase (CT) interaction site; other site 994484017448 biotinylation site [posttranslational modification]; other site 994484017449 pyruvate carboxylase subunit A; Validated; Region: PRK07178 994484017450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484017451 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 994484017452 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 994484017453 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484017454 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 994484017455 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 994484017456 putative dimerization interface [polypeptide binding]; other site 994484017457 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 994484017458 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...; Region: SIS_RpiR; cd05013 994484017459 putative active site [active] 994484017460 PAS fold; Region: PAS_3; pfam08447 994484017461 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484017462 bacterio-opsin activator; Provisional; Region: PRK13558 994484017463 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 994484017464 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484017465 metal binding site [ion binding]; metal-binding site 994484017466 active site 994484017467 I-site; other site 994484017468 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 994484017469 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 994484017470 UvrD/REP helicase; Region: UvrD-helicase; cl14126 994484017471 Tim44-like domain; Region: Tim44; cl09208 994484017472 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484017473 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 994484017474 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...; Region: BFIT_BACH; cd03442 994484017475 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 994484017476 pyridoxal binding site [chemical binding]; other site 994484017477 dimer interface [polypeptide binding]; other site 994484017478 ATP binding site [chemical binding]; other site 994484017479 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 994484017480 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 994484017481 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484017482 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 994484017483 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 994484017484 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 994484017485 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484017486 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 994484017487 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 994484017488 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 994484017489 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 994484017490 Walker A/P-loop; other site 994484017491 ATP binding site [chemical binding]; other site 994484017492 Q-loop/lid; other site 994484017493 ABC transporter signature motif; other site 994484017494 Walker B; other site 994484017495 D-loop; other site 994484017496 H-loop/switch region; other site 994484017497 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...; Region: TM_ABC_iron-siderophores_like; cl00462 994484017498 ABC-ATPase subunit interface; other site 994484017499 dimer interface [polypeptide binding]; other site 994484017500 putative PBP binding regions; other site 994484017501 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 994484017502 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 994484017503 metal binding site [ion binding]; metal-binding site 994484017504 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 994484017505 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 994484017506 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 994484017507 putative active site [active] 994484017508 catalytic site [active] 994484017509 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 994484017510 putative active site [active] 994484017511 catalytic site [active] 994484017512 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 994484017513 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 994484017514 S-adenosylmethionine binding site [chemical binding]; other site 994484017515 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 994484017516 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484017517 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 994484017518 HflK protein; Region: hflK; TIGR01933 994484017519 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 994484017520 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 994484017521 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 994484017522 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 994484017523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017525 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484017526 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 994484017527 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 994484017528 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; cl12011 994484017529 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 994484017530 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 994484017531 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; cl12011 994484017532 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; cd01635 994484017533 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 994484017534 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 994484017535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017536 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 994484017537 NAD(P) binding site [chemical binding]; other site 994484017538 active site 994484017539 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 994484017540 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 994484017541 NADP-binding site; other site 994484017542 homotetramer interface [polypeptide binding]; other site 994484017543 substrate binding site [chemical binding]; other site 994484017544 homodimer interface [polypeptide binding]; other site 994484017545 active site 994484017546 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 994484017547 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 994484017548 Substrate binding site [chemical binding]; other site 994484017549 Cupin domain; Region: Cupin_2; cl09118 994484017550 ABC-2 type transporter; Region: ABC2_membrane; cl11417 994484017551 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 994484017552 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...; Region: ABC_KpsT_Wzt; cd03220 994484017553 Walker A/P-loop; other site 994484017554 ATP binding site [chemical binding]; other site 994484017555 Q-loop/lid; other site 994484017556 ABC transporter signature motif; other site 994484017557 Walker B; other site 994484017558 D-loop; other site 994484017559 H-loop/switch region; other site 994484017560 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 994484017561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484017562 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484017563 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 994484017564 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484017565 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_4; cd03795 994484017566 putative ADP-binding pocket [chemical binding]; other site 994484017567 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484017568 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 994484017569 putative C-terminal domain interface [polypeptide binding]; other site 994484017570 putative GSH binding site (G-site) [chemical binding]; other site 994484017571 putative dimer interface [polypeptide binding]; other site 994484017572 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 994484017573 putative N-terminal domain interface [polypeptide binding]; other site 994484017574 putative dimer interface [polypeptide binding]; other site 994484017575 putative substrate binding pocket (H-site) [chemical binding]; other site 994484017576 transcriptional regulator; Provisional; Region: PRK10632 994484017577 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484017578 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 994484017579 putative effector binding pocket; other site 994484017580 putative dimerization interface [polypeptide binding]; other site 994484017581 Sulfatase; Region: Sulfatase; cl10460 994484017582 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 994484017583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017584 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 994484017585 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484017586 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 994484017587 conserved cys residue [active] 994484017588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484017589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484017590 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 994484017591 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...; Region: ADPRase_NUDT5; cd03424 994484017592 dimer interface [polypeptide binding]; other site 994484017593 ADP-ribose binding site [chemical binding]; other site 994484017594 active site 994484017595 nudix motif; other site 994484017596 metal binding site [ion binding]; metal-binding site 994484017597 Cache domain; Region: Cache_1; pfam02743 994484017598 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 994484017599 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 connected by an extended linker. The...; Region: HAMP; cd06225 994484017600 dimerization interface [polypeptide binding]; other site 994484017601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484017602 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 994484017603 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 994484017604 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...; Region: NAD_synthase; cd00553 994484017605 homodimer interface [polypeptide binding]; other site 994484017606 NAD binding pocket [chemical binding]; other site 994484017607 ATP binding pocket [chemical binding]; other site 994484017608 Mg binding site [ion binding]; other site 994484017609 active-site loop [active] 994484017610 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 994484017611 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl12019 994484017612 active site 994484017613 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 994484017614 Isochorismatase family; Region: Isochorismatase; pfam00857 994484017615 catalytic triad [active] 994484017616 metal binding site [ion binding]; metal-binding site 994484017617 conserved cis-peptide bond; other site 994484017618 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484017619 active site 994484017620 nucleotide binding site [chemical binding]; other site 994484017621 HIGH motif; other site 994484017622 KMSKS motif; other site 994484017623 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 994484017624 HipA-like N-terminal domain; Region: HipA_N; pfam07805 994484017625 HipA-like C-terminal domain; Region: HipA_C; pfam07804 994484017626 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 994484017627 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...; Region: GFAT; cd00714 994484017628 glutaminase active site [active] 994484017629 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 994484017630 dimer interface [polypeptide binding]; other site 994484017631 active site 994484017632 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 994484017633 dimer interface [polypeptide binding]; other site 994484017634 active site 994484017635 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 994484017636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 994484017637 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 994484017638 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 994484017639 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 994484017640 Substrate binding site [chemical binding]; other site 994484017641 Mg++ binding site [ion binding]; other site 994484017642 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 994484017643 active site 994484017644 substrate binding site [chemical binding]; other site 994484017645 CoA binding site [chemical binding]; other site 994484017646 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 994484017647 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 994484017648 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 994484017649 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 994484017650 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 994484017651 alpha subunit interaction interface [polypeptide binding]; other site 994484017652 Walker A motif; other site 994484017653 ATP binding site [chemical binding]; other site 994484017654 Walker B motif; other site 994484017655 inhibitor binding site; inhibition site 994484017656 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 994484017657 ATP synthase; Region: ATP-synt; cl00365 994484017658 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 994484017659 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 994484017660 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 994484017661 beta subunit interaction interface [polypeptide binding]; other site 994484017662 Walker A motif; other site 994484017663 ATP binding site [chemical binding]; other site 994484017664 Walker B motif; other site 994484017665 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 994484017666 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 994484017667 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 994484017668 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 994484017669 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 994484017670 ATP synthase subunit C; Region: ATP-synt_C; cl00466 994484017671 ATP synthase A chain; Region: ATP-synt_A; cl00413 994484017672 ATP synthase I chain; Region: ATP_synt_I; cl09170 994484017673 ParB-like partition proteins; Region: parB_part; TIGR00180 994484017674 ParB-like nuclease domain; Region: ParBc; cl02129 994484017675 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484017676 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 994484017677 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 994484017678 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; cl12011 994484017679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017680 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 994484017681 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 994484017682 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 994484017683 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 994484017684 G1 box; other site 994484017685 GTP/Mg2+ binding site [chemical binding]; other site 994484017686 Switch I region; other site 994484017687 G2 box; other site 994484017688 Switch II region; other site 994484017689 G3 box; other site 994484017690 G4 box; other site 994484017691 G5 box; other site 994484017692 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 994484017693 membrane protein insertase; Provisional; Region: PRK01318 994484017694 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 994484017695 Domain of unknown function DUF37; Region: DUF37; cl00506 994484017696 Ribonuclease P; Region: Ribonuclease_P; cl00457