-- dump date 20140620_004730 -- class Genbank::misc_feature -- table misc_feature_note -- id note 994484000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 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 ABC; 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 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 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 trimeric...; 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 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484000019 Walker A/P-loop; other site 994484000020 ATP binding site [chemical binding]; other site 994484000021 Q-loop/lid; other site 994484000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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; cd00075 994484000029 Mg2+ binding site [ion binding]; other site 994484000030 G-X-G motif; other site 994484000031 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 994484000032 anchoring element; other site 994484000033 dimer interface [polypeptide binding]; other site 994484000034 ATP binding site [chemical binding]; other site 994484000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 994484000036 active site 994484000037 putative metal-binding site [ion binding]; other site 994484000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 994484000039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 994484000040 Integrase core domain; Region: rve; pfam00665 994484000041 Integrase core domain; Region: rve_3; pfam13683 994484000042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 994484000043 Homeodomain-like domain; Region: HTH_23; cl17451 994484000044 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 994484000045 Spore germination protein; Region: Spore_permease; cl17796 994484000046 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484000047 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 994484000048 active site 994484000049 phosphorylation site [posttranslational modification] 994484000050 intermolecular recognition site; other site 994484000051 dimerization interface [polypeptide binding]; other site 994484000052 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484000053 DNA binding site [nucleotide binding] 994484000054 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484000055 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484000056 dimer interface [polypeptide binding]; other site 994484000057 phosphorylation site [posttranslational modification] 994484000058 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 994484000059 ATP binding site [chemical binding]; other site 994484000060 Mg2+ binding site [ion binding]; other site 994484000061 G-X-G motif; other site 994484000062 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484000063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484000064 putative acyl-acceptor binding pocket; other site 994484000065 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 994484000066 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 994484000067 active site 994484000068 motif I; other site 994484000069 motif II; other site 994484000070 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 994484000071 HD domain; Region: HD; pfam01966 994484000072 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 994484000073 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 994484000074 dimer interface [polypeptide binding]; other site 994484000075 motif 1; other site 994484000076 active site 994484000077 motif 2; other site 994484000078 motif 3; other site 994484000079 DNA-3-methyladenine glycosylase I; Region: tag; TIGR00624 994484000080 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 994484000081 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 994484000082 putative acyl-acceptor binding pocket; other site 994484000083 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484000084 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484000085 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 994484000086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484000087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484000088 dimer interface [polypeptide binding]; other site 994484000089 putative CheW interface [polypeptide binding]; other site 994484000090 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484000091 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 994484000092 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484000093 classical (c) SDRs; Region: SDR_c; cd05233 994484000094 NAD(P) binding site [chemical binding]; other site 994484000095 active site 994484000096 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 994484000097 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484000098 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000099 metal binding site [ion binding]; metal-binding site 994484000100 active site 994484000101 I-site; other site 994484000102 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 994484000103 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484000104 Zn2+ binding site [ion binding]; other site 994484000105 Mg2+ binding site [ion binding]; other site 994484000106 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 994484000107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484000108 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 994484000109 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 994484000110 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 994484000111 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 994484000112 motif II; other site 994484000113 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 994484000114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000115 dimer interface [polypeptide binding]; other site 994484000116 conserved gate region; other site 994484000117 putative PBP binding loops; other site 994484000118 ABC-ATPase subunit interface; other site 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, and...; Region: TM_PBP2; cd06261 994484000120 dimer interface [polypeptide binding]; other site 994484000121 conserved gate region; other site 994484000122 putative PBP binding loops; other site 994484000123 ABC-ATPase subunit interface; other site 994484000124 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 994484000125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484000126 Walker A/P-loop; other site 994484000127 ATP binding site [chemical binding]; other site 994484000128 Q-loop/lid; other site 994484000129 ABC transporter signature motif; other site 994484000130 Walker B; other site 994484000131 D-loop; other site 994484000132 H-loop/switch region; other site 994484000133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000134 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 994484000135 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 994484000136 dimerization interface [polypeptide binding]; other site 994484000137 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 994484000138 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 994484000139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000140 dimer interface [polypeptide binding]; other site 994484000141 conserved gate region; other site 994484000142 ABC-ATPase subunit interface; other site 994484000143 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 994484000144 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 994484000145 Walker A/P-loop; other site 994484000146 ATP binding site [chemical binding]; other site 994484000147 Q-loop/lid; other site 994484000148 ABC transporter signature motif; other site 994484000149 Walker B; other site 994484000150 D-loop; other site 994484000151 H-loop/switch region; other site 994484000152 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 994484000153 hydroperoxidase II; Provisional; Region: katE; PRK11249 994484000154 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 994484000155 tetramer interface [polypeptide binding]; other site 994484000156 heme binding pocket [chemical binding]; other site 994484000157 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 994484000158 domain interactions; other site 994484000159 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 994484000160 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 994484000161 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 994484000162 ABC-ATPase subunit interface; other site 994484000163 dimer interface [polypeptide binding]; other site 994484000164 putative PBP binding regions; other site 994484000165 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 994484000166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484000167 Walker A/P-loop; other site 994484000168 ATP binding site [chemical binding]; other site 994484000169 Q-loop/lid; other site 994484000170 ABC transporter signature motif; other site 994484000171 Walker B; other site 994484000172 D-loop; other site 994484000173 H-loop/switch region; other site 994484000174 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 994484000175 metal binding site 2 [ion binding]; metal-binding site 994484000176 putative DNA binding helix; other site 994484000177 metal binding site 1 [ion binding]; metal-binding site 994484000178 dimer interface [polypeptide binding]; other site 994484000179 structural Zn2+ binding site [ion binding]; other site 994484000180 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 994484000181 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 994484000182 metal binding site [ion binding]; metal-binding site 994484000183 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 994484000184 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 994484000185 putative active site [active] 994484000186 putative substrate binding site [chemical binding]; other site 994484000187 ATP binding site [chemical binding]; other site 994484000188 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 994484000189 DNA polymerase I; Provisional; Region: PRK05755 994484000190 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 994484000191 active site 994484000192 metal binding site 1 [ion binding]; metal-binding site 994484000193 putative 5' ssDNA interaction site; other site 994484000194 metal binding site 3; metal-binding site 994484000195 metal binding site 2 [ion binding]; metal-binding site 994484000196 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 994484000197 putative DNA binding site [nucleotide binding]; other site 994484000198 putative metal binding site [ion binding]; other site 994484000199 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 994484000200 active site 994484000201 catalytic site [active] 994484000202 substrate binding site [chemical binding]; other site 994484000203 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 994484000204 active site 994484000205 DNA binding site [nucleotide binding] 994484000206 catalytic site [active] 994484000207 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 994484000208 G1 box; other site 994484000209 GTP/Mg2+ binding site [chemical binding]; other site 994484000210 Switch I region; other site 994484000211 G2 box; other site 994484000212 G3 box; other site 994484000213 Switch II region; other site 994484000214 G4 box; other site 994484000215 G5 box; other site 994484000216 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 994484000217 Cytochrome c553 [Energy production and conversion]; Region: COG2863 994484000218 Cytochrome c; Region: Cytochrom_C; cl11414 994484000219 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 994484000220 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 994484000221 catalytic residues [active] 994484000222 hinge region; other site 994484000223 alpha helical domain; other site 994484000224 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 994484000225 putative catalytic site [active] 994484000226 putative metal binding site [ion binding]; other site 994484000227 putative phosphate binding site [ion binding]; other site 994484000228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484000229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000230 metal binding site [ion binding]; metal-binding site 994484000231 active site 994484000232 I-site; other site 994484000233 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 994484000234 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 994484000235 amidase catalytic site [active] 994484000236 Zn binding residues [ion binding]; other site 994484000237 substrate binding site [chemical binding]; other site 994484000238 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 994484000239 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 994484000240 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 994484000241 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 994484000242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 994484000243 HAMP domain; Region: HAMP; pfam00672 994484000244 dimerization interface [polypeptide binding]; other site 994484000245 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 994484000246 putative active site [active] 994484000247 heme pocket [chemical binding]; other site 994484000248 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484000249 dimer interface [polypeptide binding]; other site 994484000250 phosphorylation site [posttranslational modification] 994484000251 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 994484000252 ATP binding site [chemical binding]; other site 994484000253 Mg2+ binding site [ion binding]; other site 994484000254 G-X-G motif; other site 994484000255 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484000256 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 994484000257 active site 994484000258 phosphorylation site [posttranslational modification] 994484000259 intermolecular recognition site; other site 994484000260 dimerization interface [polypeptide binding]; other site 994484000261 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484000262 Walker A motif; other site 994484000263 ATP binding site [chemical binding]; other site 994484000264 Walker B motif; other site 994484000265 arginine finger; other site 994484000266 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484000267 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 994484000268 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 994484000269 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484000270 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 994484000271 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 994484000272 Protein of unknown function (DUF330); Region: DUF330; cl01135 994484000273 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 994484000274 mce related protein; Region: MCE; pfam02470 994484000275 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 994484000276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484000277 Walker A/P-loop; other site 994484000278 ATP binding site [chemical binding]; other site 994484000279 Q-loop/lid; other site 994484000280 ABC transporter signature motif; other site 994484000281 Walker B; other site 994484000282 D-loop; other site 994484000283 H-loop/switch region; other site 994484000284 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 994484000285 Permease; Region: Permease; pfam02405 994484000286 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 994484000287 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 994484000288 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 994484000289 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484000290 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 994484000291 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 994484000292 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 994484000293 PhoU domain; Region: PhoU; pfam01895 994484000294 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 994484000295 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 994484000296 Citrate transporter; Region: CitMHS; pfam03600 994484000297 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 994484000298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000299 NADH(P)-binding; Region: NAD_binding_10; pfam13460 994484000300 NAD(P) binding site [chemical binding]; other site 994484000301 active site 994484000302 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 994484000303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000304 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484000305 dimerization interface [polypeptide binding]; other site 994484000306 substrate binding pocket [chemical binding]; other site 994484000307 Sulfatase; Region: Sulfatase; cl17466 994484000308 choline-sulfatase; Region: chol_sulfatase; TIGR03417 994484000309 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 994484000310 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484000311 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484000312 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 994484000313 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 994484000314 Sulfate transporter family; Region: Sulfate_transp; pfam00916 994484000315 Sulfate transporter family; Region: Sulfate_transp; pfam00916 994484000316 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 994484000317 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 994484000318 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 994484000319 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484000320 shikimate binding site; other site 994484000321 NAD(P) binding site [chemical binding]; other site 994484000322 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 994484000323 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 994484000324 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 994484000325 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 994484000326 NADP binding site [chemical binding]; other site 994484000327 dimer interface [polypeptide binding]; other site 994484000328 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 994484000329 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 994484000330 DNA protecting protein DprA; Region: dprA; TIGR00732 994484000331 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484000332 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 994484000333 active site 994484000334 catalytic residues [active] 994484000335 metal binding site [ion binding]; metal-binding site 994484000336 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 994484000337 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 994484000338 putative active site [active] 994484000339 substrate binding site [chemical binding]; other site 994484000340 putative cosubstrate binding site; other site 994484000341 catalytic site [active] 994484000342 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 994484000343 substrate binding site [chemical binding]; other site 994484000344 16S rRNA methyltransferase B; Provisional; Region: PRK10901 994484000345 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 994484000346 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 994484000347 S-adenosylmethionine binding site [chemical binding]; other site 994484000348 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 994484000349 TrkA-N domain; Region: TrkA_N; pfam02254 994484000350 TrkA-C domain; Region: TrkA_C; pfam02080 994484000351 TrkA-N domain; Region: TrkA_N; pfam02254 994484000352 TrkA-C domain; Region: TrkA_C; pfam02080 994484000353 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 994484000354 TPR motif; other site 994484000355 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 994484000356 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000357 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000358 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000359 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000360 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484000361 TrkA-C domain; Region: TrkA_C; pfam02080 994484000362 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 994484000363 TPR motif; other site 994484000364 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 994484000365 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 994484000366 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 994484000367 FeS/SAM binding site; other site 994484000368 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 994484000369 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 994484000370 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 994484000371 FeS/SAM binding site; other site 994484000372 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 994484000373 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 994484000374 Cu(I) binding site [ion binding]; other site 994484000375 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 994484000376 UbiA prenyltransferase family; Region: UbiA; pfam01040 994484000377 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 994484000378 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 994484000379 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 994484000380 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 994484000381 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 994484000382 Subunit III/VIIa interface [polypeptide binding]; other site 994484000383 Phospholipid binding site [chemical binding]; other site 994484000384 Subunit I/III interface [polypeptide binding]; other site 994484000385 Subunit III/VIb interface [polypeptide binding]; other site 994484000386 Subunit III/VIa interface; other site 994484000387 Subunit III/Vb interface [polypeptide binding]; other site 994484000388 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 994484000389 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 994484000390 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 994484000391 Subunit I/III interface [polypeptide binding]; other site 994484000392 D-pathway; other site 994484000393 Subunit I/VIIc interface [polypeptide binding]; other site 994484000394 Subunit I/IV interface [polypeptide binding]; other site 994484000395 Subunit I/II interface [polypeptide binding]; other site 994484000396 Low-spin heme (heme a) binding site [chemical binding]; other site 994484000397 Subunit I/VIIa interface [polypeptide binding]; other site 994484000398 Subunit I/VIa interface [polypeptide binding]; other site 994484000399 Dimer interface; other site 994484000400 Putative water exit pathway; other site 994484000401 Binuclear center (heme a3/CuB) [ion binding]; other site 994484000402 K-pathway; other site 994484000403 Subunit I/Vb interface [polypeptide binding]; other site 994484000404 Putative proton exit pathway; other site 994484000405 Subunit I/VIb interface; other site 994484000406 Subunit I/VIc interface [polypeptide binding]; other site 994484000407 Electron transfer pathway; other site 994484000408 Subunit I/VIIIb interface [polypeptide binding]; other site 994484000409 Subunit I/VIIb interface [polypeptide binding]; other site 994484000410 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 994484000411 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 994484000412 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 994484000413 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484000414 Cytochrome c; Region: Cytochrom_C; pfam00034 994484000415 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 994484000416 Sulfate transporter family; Region: Sulfate_transp; pfam00916 994484000417 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 994484000418 active site clefts [active] 994484000419 zinc binding site [ion binding]; other site 994484000420 dimer interface [polypeptide binding]; other site 994484000421 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 994484000422 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 994484000423 FeS/SAM binding site; other site 994484000424 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 994484000425 active site 994484000426 catalytic residues [active] 994484000427 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 994484000428 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 994484000429 Zn binding site [ion binding]; other site 994484000430 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 994484000431 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 994484000432 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 994484000433 active site 994484000434 Zn binding site [ion binding]; other site 994484000435 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 994484000436 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 994484000437 trimer interface [polypeptide binding]; other site 994484000438 putative metal binding site [ion binding]; other site 994484000439 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484000440 Eukaryotic phosphomannomutase; Region: PMM; cl17107 994484000441 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 994484000442 motif II; other site 994484000443 Transposase IS200 like; Region: Y1_Tnp; pfam01797 994484000444 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484000445 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484000446 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 994484000447 active site 994484000448 homodimer interface [polypeptide binding]; other site 994484000449 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 994484000450 amino acid carrier protein; Region: agcS; TIGR00835 994484000451 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 994484000452 Aspartase; Region: Aspartase; cd01357 994484000453 active sites [active] 994484000454 tetramer interface [polypeptide binding]; other site 994484000455 cell density-dependent motility repressor; Provisional; Region: PRK10082 994484000456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000457 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 994484000458 dimerization interface [polypeptide binding]; other site 994484000459 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 994484000460 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 994484000461 ATP-grasp domain; Region: ATP-grasp; pfam02222 994484000462 Predicted membrane protein [Function unknown]; Region: COG2261 994484000463 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 994484000464 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 994484000465 active site 994484000466 phosphate binding residues; other site 994484000467 catalytic residues [active] 994484000468 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 994484000469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484000470 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484000471 putative substrate translocation pore; other site 994484000472 PBP superfamily domain; Region: PBP_like_2; cl17296 994484000473 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 994484000474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000475 dimer interface [polypeptide binding]; other site 994484000476 conserved gate region; other site 994484000477 putative PBP binding loops; other site 994484000478 ABC-ATPase subunit interface; other site 994484000479 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 994484000480 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 994484000481 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000482 dimer interface [polypeptide binding]; other site 994484000483 conserved gate region; other site 994484000484 putative PBP binding loops; other site 994484000485 ABC-ATPase subunit interface; other site 994484000486 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 994484000487 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 994484000488 Walker A/P-loop; other site 994484000489 ATP binding site [chemical binding]; other site 994484000490 Q-loop/lid; other site 994484000491 ABC transporter signature motif; other site 994484000492 Walker B; other site 994484000493 D-loop; other site 994484000494 H-loop/switch region; other site 994484000495 transcriptional regulator PhoU; Provisional; Region: PRK11115 994484000496 PhoU domain; Region: PhoU; pfam01895 994484000497 PhoU domain; Region: PhoU; pfam01895 994484000498 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484000499 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 994484000500 active site 994484000501 phosphorylation site [posttranslational modification] 994484000502 intermolecular recognition site; other site 994484000503 dimerization interface [polypeptide binding]; other site 994484000504 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 994484000505 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 994484000506 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484000507 Domain of unknown function DUF21; Region: DUF21; pfam01595 994484000508 gliding motility-associated protein GldE; Region: GldE; TIGR03520 994484000509 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 994484000510 Transporter associated domain; Region: CorC_HlyC; pfam03471 994484000511 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 994484000512 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484000513 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 994484000514 putative active site [active] 994484000515 heme pocket [chemical binding]; other site 994484000516 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484000517 dimer interface [polypeptide binding]; other site 994484000518 phosphorylation site [posttranslational modification] 994484000519 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 994484000520 ATP binding site [chemical binding]; other site 994484000521 Mg2+ binding site [ion binding]; other site 994484000522 G-X-G motif; other site 994484000523 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 994484000524 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 994484000525 active site 994484000526 phosphorylation site [posttranslational modification] 994484000527 intermolecular recognition site; other site 994484000528 dimerization interface [polypeptide binding]; other site 994484000529 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484000530 DNA binding site [nucleotide binding] 994484000531 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 994484000532 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 994484000533 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 994484000534 UbiA prenyltransferase family; Region: UbiA; pfam01040 994484000535 Chorismate lyase; Region: Chor_lyase; cl01230 994484000536 Rubredoxin [Energy production and conversion]; Region: COG1773 994484000537 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 994484000538 iron binding site [ion binding]; other site 994484000539 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 994484000540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484000541 hypothetical protein; Provisional; Region: PRK07236 994484000542 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 994484000543 IHF dimer interface [polypeptide binding]; other site 994484000544 IHF - DNA interface [nucleotide binding]; other site 994484000545 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 994484000546 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 994484000547 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 994484000548 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 994484000549 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 994484000550 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 994484000551 Dodecin; Region: Dodecin; pfam07311 994484000552 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 994484000553 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484000554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000555 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 994484000556 dimerization interface [polypeptide binding]; other site 994484000557 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 994484000558 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 994484000559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484000560 catalytic residue [active] 994484000561 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 994484000562 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 994484000563 substrate binding site [chemical binding]; other site 994484000564 active site 994484000565 catalytic residues [active] 994484000566 heterodimer interface [polypeptide binding]; other site 994484000567 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 994484000568 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 994484000569 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 994484000570 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 994484000571 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 994484000572 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 994484000573 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 994484000574 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 994484000575 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 994484000576 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 994484000577 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 994484000578 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 994484000579 ligand binding site [chemical binding]; other site 994484000580 homodimer interface [polypeptide binding]; other site 994484000581 NAD(P) binding site [chemical binding]; other site 994484000582 trimer interface B [polypeptide binding]; other site 994484000583 trimer interface A [polypeptide binding]; other site 994484000584 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484000585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000586 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 994484000587 dimerization interface [polypeptide binding]; other site 994484000588 substrate binding pocket [chemical binding]; other site 994484000589 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 994484000590 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484000591 FAD binding site [chemical binding]; other site 994484000592 substrate binding pocket [chemical binding]; other site 994484000593 catalytic base [active] 994484000594 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 994484000595 CoA-transferase family III; Region: CoA_transf_3; pfam02515 994484000596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 994484000597 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 994484000598 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 994484000599 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 994484000600 binding surface 994484000601 TPR motif; other site 994484000602 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 994484000603 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 994484000604 putative active site [active] 994484000605 putative metal binding site [ion binding]; other site 994484000606 N-glycosyltransferase; Provisional; Region: PRK11204 994484000607 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 994484000608 DXD motif; other site 994484000609 PgaD-like protein; Region: PgaD; pfam13994 994484000610 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 994484000611 [2Fe-2S] cluster binding site [ion binding]; other site 994484000612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484000613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484000614 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 994484000615 substrate binding site [chemical binding]; other site 994484000616 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484000617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484000618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000619 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 994484000620 putative effector binding pocket; other site 994484000621 dimerization interface [polypeptide binding]; other site 994484000622 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 994484000623 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484000624 putative NAD(P) binding site [chemical binding]; other site 994484000625 von Willebrand factor; Region: vWF_A; pfam12450 994484000626 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 994484000627 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...; Region: vWA_subgroup; cd01465 994484000628 metal ion-dependent adhesion site (MIDAS); other site 994484000629 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 994484000630 RNA polymerase sigma factor; Provisional; Region: PRK12513 994484000631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484000632 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484000633 DNA binding residues [nucleotide binding] 994484000634 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 994484000635 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484000636 tetramerization interface [polypeptide binding]; other site 994484000637 NAD(P) binding site [chemical binding]; other site 994484000638 catalytic residues [active] 994484000639 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 994484000640 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 994484000641 inhibitor-cofactor binding pocket; inhibition site 994484000642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484000643 catalytic residue [active] 994484000644 Response regulator receiver domain; Region: Response_reg; pfam00072 994484000645 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 994484000646 active site 994484000647 phosphorylation site [posttranslational modification] 994484000648 intermolecular recognition site; other site 994484000649 dimerization interface [polypeptide binding]; other site 994484000650 HDOD domain; Region: HDOD; pfam08668 994484000651 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 994484000652 PAS fold; Region: PAS_3; pfam08447 994484000653 putative active site [active] 994484000654 heme pocket [chemical binding]; other site 994484000655 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484000656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000657 metal binding site [ion binding]; metal-binding site 994484000658 active site 994484000659 I-site; other site 994484000660 Fatty acid desaturase; Region: FA_desaturase; pfam00487 994484000661 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 994484000662 Di-iron ligands [ion binding]; other site 994484000663 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 994484000664 Transposase; Region: DDE_Tnp_ISL3; pfam01610 994484000665 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 994484000666 PAS domain; Region: PAS_9; pfam13426 994484000667 putative active site [active] 994484000668 heme pocket [chemical binding]; other site 994484000669 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484000670 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000671 metal binding site [ion binding]; metal-binding site 994484000672 active site 994484000673 I-site; other site 994484000674 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 994484000675 Uncharacterized small protein [Function unknown]; Region: COG5583 994484000676 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 994484000677 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 994484000678 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484000679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000680 dimer interface [polypeptide binding]; other site 994484000681 conserved gate region; other site 994484000682 putative PBP binding loops; other site 994484000683 ABC-ATPase subunit interface; other site 994484000684 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484000685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000686 dimer interface [polypeptide binding]; other site 994484000687 conserved gate region; other site 994484000688 putative PBP binding loops; other site 994484000689 ABC-ATPase subunit interface; other site 994484000690 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 994484000691 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 994484000692 Walker A/P-loop; other site 994484000693 ATP binding site [chemical binding]; other site 994484000694 Q-loop/lid; other site 994484000695 ABC transporter signature motif; other site 994484000696 Walker B; other site 994484000697 D-loop; other site 994484000698 H-loop/switch region; other site 994484000699 TOBE-like domain; Region: TOBE_3; pfam12857 994484000700 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484000701 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484000702 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484000703 Predicted membrane protein [Function unknown]; Region: COG4539 994484000704 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484000705 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 994484000706 ligand binding site [chemical binding]; other site 994484000707 flexible hinge region; other site 994484000708 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 994484000709 putative switch regulator; other site 994484000710 non-specific DNA interactions [nucleotide binding]; other site 994484000711 DNA binding site [nucleotide binding] 994484000712 sequence specific DNA binding site [nucleotide binding]; other site 994484000713 putative cAMP binding site [chemical binding]; other site 994484000714 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484000715 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484000716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484000717 Fatty acid desaturase; Region: FA_desaturase; pfam00487 994484000718 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 994484000719 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 994484000720 N-terminal plug; other site 994484000721 ligand-binding site [chemical binding]; other site 994484000722 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484000723 FecR protein; Region: FecR; pfam04773 994484000724 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 994484000725 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484000726 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484000727 DNA binding residues [nucleotide binding] 994484000728 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 994484000729 Cache domain; Region: Cache_1; pfam02743 994484000730 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484000731 dimerization interface [polypeptide binding]; other site 994484000732 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484000733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484000734 dimer interface [polypeptide binding]; other site 994484000735 putative CheW interface [polypeptide binding]; other site 994484000736 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 994484000737 putative hydrophobic ligand binding site [chemical binding]; other site 994484000738 protein interface [polypeptide binding]; other site 994484000739 gate; other site 994484000740 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484000741 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484000742 acyl-activating enzyme (AAE) consensus motif; other site 994484000743 AMP binding site [chemical binding]; other site 994484000744 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484000745 thioester reductase domain; Region: Thioester-redct; TIGR01746 994484000746 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 994484000747 putative NAD(P) binding site [chemical binding]; other site 994484000748 active site 994484000749 putative substrate binding site [chemical binding]; other site 994484000750 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 994484000751 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 994484000752 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484000753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484000754 DNA-binding site [nucleotide binding]; DNA binding site 994484000755 FCD domain; Region: FCD; pfam07729 994484000756 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 994484000757 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484000758 dimerization interface [polypeptide binding]; other site 994484000759 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484000760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484000761 metal binding site [ion binding]; metal-binding site 994484000762 active site 994484000763 I-site; other site 994484000764 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 994484000765 Calx-beta domain; Region: Calx-beta; cl02522 994484000766 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 994484000767 metal ion-dependent adhesion site (MIDAS); other site 994484000768 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484000769 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 994484000770 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484000771 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 994484000772 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 994484000773 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484000774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484000775 Walker A/P-loop; other site 994484000776 ATP binding site [chemical binding]; other site 994484000777 Q-loop/lid; other site 994484000778 ABC transporter signature motif; other site 994484000779 Walker B; other site 994484000780 D-loop; other site 994484000781 H-loop/switch region; other site 994484000782 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484000783 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484000784 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 994484000785 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 994484000786 active site 994484000787 iron coordination sites [ion binding]; other site 994484000788 substrate binding pocket [chemical binding]; other site 994484000789 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 994484000790 NMT1-like family; Region: NMT1_2; pfam13379 994484000791 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484000792 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 994484000793 Walker A/P-loop; other site 994484000794 ATP binding site [chemical binding]; other site 994484000795 Q-loop/lid; other site 994484000796 ABC transporter signature motif; other site 994484000797 Walker B; other site 994484000798 D-loop; other site 994484000799 H-loop/switch region; other site 994484000800 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484000801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000802 dimer interface [polypeptide binding]; other site 994484000803 conserved gate region; other site 994484000804 putative PBP binding loops; other site 994484000805 ABC-ATPase subunit interface; other site 994484000806 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 994484000807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484000808 TIGR01777 family protein; Region: yfcH 994484000809 NAD(P) binding site [chemical binding]; other site 994484000810 active site 994484000811 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484000812 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 994484000813 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484000814 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484000815 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484000816 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484000817 Peptidase family M50; Region: Peptidase_M50; pfam02163 994484000818 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 994484000819 active site 994484000820 putative substrate binding region [chemical binding]; other site 994484000821 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 994484000822 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 994484000823 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484000824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484000825 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484000826 Coenzyme A binding pocket [chemical binding]; other site 994484000827 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 994484000828 Phage Tail Collar Domain; Region: Collar; pfam07484 994484000829 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 994484000830 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 994484000831 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 994484000832 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 994484000833 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 994484000834 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 994484000835 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 994484000836 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 994484000837 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 994484000838 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 994484000839 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 994484000840 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 994484000841 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 994484000842 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 994484000843 Serine hydrolase; Region: Ser_hydrolase; pfam06821 994484000844 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484000845 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484000846 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484000847 Walker A motif; other site 994484000848 ATP binding site [chemical binding]; other site 994484000849 Walker B motif; other site 994484000850 arginine finger; other site 994484000851 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484000852 RHS Repeat; Region: RHS_repeat; pfam05593 994484000853 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 994484000854 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484000855 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 994484000856 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 994484000857 Predicted ATPase [General function prediction only]; Region: COG4637 994484000858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484000859 Walker A/P-loop; other site 994484000860 ATP binding site [chemical binding]; other site 994484000861 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000862 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484000863 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484000864 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484000865 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 994484000866 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484000867 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 994484000868 metal-binding site [ion binding] 994484000869 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484000870 Soluble P-type ATPase [General function prediction only]; Region: COG4087 994484000871 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 994484000872 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 994484000873 DNA binding residues [nucleotide binding] 994484000874 dimer interface [polypeptide binding]; other site 994484000875 putative metal binding site [ion binding]; other site 994484000876 thymidylate synthase; Provisional; Region: thyA; PRK13821 994484000877 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 994484000878 dimerization interface [polypeptide binding]; other site 994484000879 active site 994484000880 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 994484000881 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484000882 NRDE protein; Region: NRDE; cl01315 994484000883 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 994484000884 GAF domain; Region: GAF; pfam01590 994484000885 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484000886 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 994484000887 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 994484000888 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 994484000889 putative active site [active] 994484000890 Ap4A binding site [chemical binding]; other site 994484000891 nudix motif; other site 994484000892 putative metal binding site [ion binding]; other site 994484000893 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484000894 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 994484000895 motif II; other site 994484000896 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 994484000897 threonine dehydratase; Reviewed; Region: PRK09224 994484000898 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 994484000899 tetramer interface [polypeptide binding]; other site 994484000900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484000901 catalytic residue [active] 994484000902 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 994484000903 putative Ile/Val binding site [chemical binding]; other site 994484000904 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 994484000905 putative Ile/Val binding site [chemical binding]; other site 994484000906 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 994484000907 tetramer (dimer of dimers) interface [polypeptide binding]; other site 994484000908 active site 994484000909 dimer interface [polypeptide binding]; other site 994484000910 SdiA-regulated; Region: SdiA-regulated; pfam06977 994484000911 SdiA-regulated; Region: SdiA-regulated; cd09971 994484000912 putative active site [active] 994484000913 SdiA-regulated; Region: SdiA-regulated; pfam06977 994484000914 SdiA-regulated; Region: SdiA-regulated; cd09971 994484000915 putative active site [active] 994484000916 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484000917 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 994484000918 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 994484000919 FAD binding domain; Region: FAD_binding_4; pfam01565 994484000920 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 994484000921 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 994484000922 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 994484000923 ligand binding site [chemical binding]; other site 994484000924 NAD binding site [chemical binding]; other site 994484000925 tetramer interface [polypeptide binding]; other site 994484000926 catalytic site [active] 994484000927 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 994484000928 L-serine binding site [chemical binding]; other site 994484000929 ACT domain interface; other site 994484000930 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 994484000931 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484000932 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484000933 substrate binding pocket [chemical binding]; other site 994484000934 Methyltransferase domain; Region: Methyltransf_31; pfam13847 994484000935 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 994484000936 S-adenosylmethionine binding site [chemical binding]; other site 994484000937 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000938 dimer interface [polypeptide binding]; other site 994484000939 conserved gate region; other site 994484000940 ABC-ATPase subunit interface; other site 994484000941 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 994484000942 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 994484000943 Walker A/P-loop; other site 994484000944 ATP binding site [chemical binding]; other site 994484000945 Q-loop/lid; other site 994484000946 ABC transporter signature motif; other site 994484000947 Walker B; other site 994484000948 D-loop; other site 994484000949 H-loop/switch region; other site 994484000950 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 994484000951 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 994484000952 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 994484000953 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 994484000954 active site 994484000955 non-prolyl cis peptide bond; other site 994484000956 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484000957 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484000958 Flavin binding site [chemical binding]; other site 994484000959 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484000960 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484000961 Flavin binding site [chemical binding]; other site 994484000962 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 994484000963 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484000964 Walker A/P-loop; other site 994484000965 ATP binding site [chemical binding]; other site 994484000966 Q-loop/lid; other site 994484000967 ABC transporter signature motif; other site 994484000968 Walker B; other site 994484000969 D-loop; other site 994484000970 H-loop/switch region; other site 994484000971 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484000972 dimer interface [polypeptide binding]; other site 994484000973 conserved gate region; other site 994484000974 putative PBP binding loops; other site 994484000975 ABC-ATPase subunit interface; other site 994484000976 cystine transporter subunit; Provisional; Region: PRK11260 994484000977 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484000978 substrate binding pocket [chemical binding]; other site 994484000979 membrane-bound complex binding site; other site 994484000980 hinge residues; other site 994484000981 D-cysteine desulfhydrase; Validated; Region: PRK03910 994484000982 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 994484000983 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484000984 catalytic residue [active] 994484000985 BCCT family transporter; Region: BCCT; cl00569 994484000986 short chain dehydrogenase; Provisional; Region: PRK12937 994484000987 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 994484000988 NADP binding site [chemical binding]; other site 994484000989 homodimer interface [polypeptide binding]; other site 994484000990 active site 994484000991 substrate binding site [chemical binding]; other site 994484000992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484000993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484000994 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 994484000995 putative effector binding pocket; other site 994484000996 putative dimerization interface [polypeptide binding]; other site 994484000997 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484000998 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484000999 active site 994484001000 catalytic tetrad [active] 994484001001 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 994484001002 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 994484001003 active site 994484001004 iron coordination sites [ion binding]; other site 994484001005 substrate binding pocket [chemical binding]; other site 994484001006 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484001007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484001008 dimer interface [polypeptide binding]; other site 994484001009 conserved gate region; other site 994484001010 putative PBP binding loops; other site 994484001011 ABC-ATPase subunit interface; other site 994484001012 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 994484001013 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 994484001014 Walker A/P-loop; other site 994484001015 ATP binding site [chemical binding]; other site 994484001016 Q-loop/lid; other site 994484001017 ABC transporter signature motif; other site 994484001018 Walker B; other site 994484001019 D-loop; other site 994484001020 H-loop/switch region; other site 994484001021 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 994484001022 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484001023 substrate binding pocket [chemical binding]; other site 994484001024 membrane-bound complex binding site; other site 994484001025 hinge residues; other site 994484001026 glutamate--cysteine ligase; Provisional; Region: PRK02107 994484001027 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 994484001028 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 994484001029 CoenzymeA binding site [chemical binding]; other site 994484001030 subunit interaction site [polypeptide binding]; other site 994484001031 PHB binding site; other site 994484001032 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 994484001033 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 994484001034 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 994484001035 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 994484001036 RNA binding site [nucleotide binding]; other site 994484001037 osmolarity response regulator; Provisional; Region: ompR; PRK09468 994484001038 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 994484001039 active site 994484001040 phosphorylation site [posttranslational modification] 994484001041 intermolecular recognition site; other site 994484001042 dimerization interface [polypeptide binding]; other site 994484001043 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484001044 DNA binding site [nucleotide binding] 994484001045 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 994484001046 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001047 dimerization interface [polypeptide binding]; other site 994484001048 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 994484001049 ATP binding site [chemical binding]; other site 994484001050 Mg2+ binding site [ion binding]; other site 994484001051 G-X-G motif; other site 994484001052 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 994484001053 RimK-like ATP-grasp domain; Region: RimK; pfam08443 994484001054 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 994484001055 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 994484001056 RNA binding surface [nucleotide binding]; other site 994484001057 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 994484001058 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 994484001059 dimerization interface [polypeptide binding]; other site 994484001060 domain crossover interface; other site 994484001061 redox-dependent activation switch; other site 994484001062 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 994484001063 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 994484001064 active site 994484001065 substrate-binding site [chemical binding]; other site 994484001066 metal-binding site [ion binding] 994484001067 ATP binding site [chemical binding]; other site 994484001068 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 994484001069 S-type Pyocin; Region: Pyocin_S; pfam06958 994484001070 Cytotoxic; Region: Cytotoxic; pfam09000 994484001071 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 994484001072 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 994484001073 ATP binding site [chemical binding]; other site 994484001074 putative Mg++ binding site [ion binding]; other site 994484001075 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 994484001076 nucleotide binding region [chemical binding]; other site 994484001077 ATP-binding site [chemical binding]; other site 994484001078 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 994484001079 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484001080 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484001081 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484001082 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 994484001083 active site 994484001084 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 994484001085 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 994484001086 putative molybdopterin cofactor binding site [chemical binding]; other site 994484001087 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 994484001088 putative molybdopterin cofactor binding site; other site 994484001089 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 994484001090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001092 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 994484001093 dimerization interface [polypeptide binding]; other site 994484001094 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 994484001095 BON domain; Region: BON; pfam04972 994484001096 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484001097 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 994484001098 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 994484001099 motif II; other site 994484001100 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 994484001101 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 994484001102 dimer interface [polypeptide binding]; other site 994484001103 ADP-ribose binding site [chemical binding]; other site 994484001104 active site 994484001105 nudix motif; other site 994484001106 metal binding site [ion binding]; metal-binding site 994484001107 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 994484001108 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 994484001109 active site 994484001110 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 994484001111 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484001112 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 994484001113 active site 994484001114 phosphorylation site [posttranslational modification] 994484001115 intermolecular recognition site; other site 994484001116 dimerization interface [polypeptide binding]; other site 994484001117 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484001118 Walker A motif; other site 994484001119 ATP binding site [chemical binding]; other site 994484001120 Walker B motif; other site 994484001121 arginine finger; other site 994484001122 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 994484001123 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484001124 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484001125 dimer interface [polypeptide binding]; other site 994484001126 phosphorylation site [posttranslational modification] 994484001127 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 994484001128 ATP binding site [chemical binding]; other site 994484001129 G-X-G motif; other site 994484001130 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 994484001131 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 994484001132 NADP binding site [chemical binding]; other site 994484001133 active site 994484001134 putative substrate binding site [chemical binding]; other site 994484001135 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 994484001136 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 994484001137 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 994484001138 substrate binding site; other site 994484001139 tetramer interface; other site 994484001140 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 994484001141 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 994484001142 NAD binding site [chemical binding]; other site 994484001143 substrate binding site [chemical binding]; other site 994484001144 homodimer interface [polypeptide binding]; other site 994484001145 active site 994484001146 hypothetical protein; Provisional; Region: PRK06149 994484001147 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 994484001148 active site 994484001149 ATP binding site [chemical binding]; other site 994484001150 substrate binding site [chemical binding]; other site 994484001151 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 994484001152 inhibitor-cofactor binding pocket; inhibition site 994484001153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484001154 catalytic residue [active] 994484001155 agmatine deiminase; Provisional; Region: PRK13551 994484001156 agmatine deiminase; Region: agmatine_aguA; TIGR03380 994484001157 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 994484001158 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 994484001159 catalytic residues [active] 994484001160 outer membrane porin, OprD family; Region: OprD; pfam03573 994484001161 Biofilm formation and stress response factor; Region: BsmA; pfam10014 994484001162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484001163 Coenzyme A binding pocket [chemical binding]; other site 994484001164 AzlC protein; Region: AzlC; cl00570 994484001165 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 994484001166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001168 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 994484001169 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 994484001170 RES domain; Region: RES; smart00953 994484001171 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484001172 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001173 dimerization interface [polypeptide binding]; other site 994484001174 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001175 dimer interface [polypeptide binding]; other site 994484001176 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 994484001177 putative CheW interface [polypeptide binding]; other site 994484001178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001180 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 994484001181 putative effector binding pocket; other site 994484001182 dimerization interface [polypeptide binding]; other site 994484001183 classical (c) SDRs; Region: SDR_c; cd05233 994484001184 short chain dehydrogenase; Provisional; Region: PRK07041 994484001185 NAD(P) binding site [chemical binding]; other site 994484001186 active site 994484001187 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 994484001188 HicB family; Region: HicB; pfam05534 994484001189 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 994484001190 Abi-like protein; Region: Abi_2; pfam07751 994484001191 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 994484001192 Methyltransferase domain; Region: Methyltransf_32; pfam13679 994484001193 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484001194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484001195 dimer interface [polypeptide binding]; other site 994484001196 conserved gate region; other site 994484001197 putative PBP binding loops; other site 994484001198 ABC-ATPase subunit interface; other site 994484001199 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484001200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484001201 dimer interface [polypeptide binding]; other site 994484001202 conserved gate region; other site 994484001203 putative PBP binding loops; other site 994484001204 ABC-ATPase subunit interface; other site 994484001205 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484001206 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484001207 substrate binding pocket [chemical binding]; other site 994484001208 membrane-bound complex binding site; other site 994484001209 hinge residues; other site 994484001210 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484001211 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484001212 Walker A/P-loop; other site 994484001213 ATP binding site [chemical binding]; other site 994484001214 Q-loop/lid; other site 994484001215 ABC transporter signature motif; other site 994484001216 Walker B; other site 994484001217 D-loop; other site 994484001218 H-loop/switch region; other site 994484001219 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 994484001220 GAF domain; Region: GAF; pfam01590 994484001221 Phytochrome region; Region: PHY; pfam00360 994484001222 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484001223 dimer interface [polypeptide binding]; other site 994484001224 phosphorylation site [posttranslational modification] 994484001225 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 994484001226 ATP binding site [chemical binding]; other site 994484001227 Mg2+ binding site [ion binding]; other site 994484001228 G-X-G motif; other site 994484001229 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 994484001230 heme binding pocket [chemical binding]; other site 994484001231 heme ligand [chemical binding]; other site 994484001232 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 994484001233 oxidative damage protection protein; Provisional; Region: PRK05408 994484001234 adenine DNA glycosylase; Provisional; Region: PRK10880 994484001235 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 994484001236 minor groove reading motif; other site 994484001237 helix-hairpin-helix signature motif; other site 994484001238 substrate binding pocket [chemical binding]; other site 994484001239 active site 994484001240 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 994484001241 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 994484001242 DNA binding and oxoG recognition site [nucleotide binding] 994484001243 AsmA family; Region: AsmA; pfam05170 994484001244 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 994484001245 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 994484001246 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484001247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484001248 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 994484001249 putative active site pocket [active] 994484001250 4-fold oligomerization interface [polypeptide binding]; other site 994484001251 metal binding residues [ion binding]; metal-binding site 994484001252 3-fold/trimer interface [polypeptide binding]; other site 994484001253 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 994484001254 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 994484001255 putative active site [active] 994484001256 oxyanion strand; other site 994484001257 catalytic triad [active] 994484001258 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 994484001259 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 994484001260 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 994484001261 catalytic residues [active] 994484001262 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 994484001263 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 994484001264 substrate binding site [chemical binding]; other site 994484001265 glutamase interaction surface [polypeptide binding]; other site 994484001266 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 994484001267 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484001268 substrate binding pocket [chemical binding]; other site 994484001269 membrane-bound complex binding site; other site 994484001270 hinge residues; other site 994484001271 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 994484001272 NodB motif; other site 994484001273 putative active site [active] 994484001274 putative catalytic site [active] 994484001275 Zn binding site [ion binding]; other site 994484001276 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 994484001277 C-terminal peptidase (prc); Region: prc; TIGR00225 994484001278 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 994484001279 protein binding site [polypeptide binding]; other site 994484001280 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 994484001281 Catalytic dyad [active] 994484001282 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 994484001283 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484001284 phosphoglyceromutase; Provisional; Region: PRK05434 994484001285 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 994484001286 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 994484001287 active site residue [active] 994484001288 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 994484001289 GSH binding site [chemical binding]; other site 994484001290 catalytic residues [active] 994484001291 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 994484001292 SecA binding site; other site 994484001293 Preprotein binding site; other site 994484001294 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 994484001295 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 994484001296 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 994484001297 active site 994484001298 phosphorylation site [posttranslational modification] 994484001299 intermolecular recognition site; other site 994484001300 dimerization interface [polypeptide binding]; other site 994484001301 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484001302 Walker A motif; other site 994484001303 ATP binding site [chemical binding]; other site 994484001304 Walker B motif; other site 994484001305 arginine finger; other site 994484001306 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484001307 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 994484001308 PAS domain; Region: PAS; smart00091 994484001309 putative active site [active] 994484001310 heme pocket [chemical binding]; other site 994484001311 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484001312 dimer interface [polypeptide binding]; other site 994484001313 phosphorylation site [posttranslational modification] 994484001314 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 994484001315 ATP binding site [chemical binding]; other site 994484001316 Mg2+ binding site [ion binding]; other site 994484001317 G-X-G motif; other site 994484001318 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 994484001319 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 994484001320 chorismate mutase; Provisional; Region: PRK09269 994484001321 Chorismate mutase type II; Region: CM_2; cl00693 994484001322 glutamine synthetase; Provisional; Region: glnA; PRK09469 994484001323 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 994484001324 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484001325 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 994484001326 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 994484001327 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 994484001328 Ligand Binding Site [chemical binding]; other site 994484001329 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 994484001330 active site residue [active] 994484001331 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 994484001332 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 994484001333 G1 box; other site 994484001334 putative GEF interaction site [polypeptide binding]; other site 994484001335 GTP/Mg2+ binding site [chemical binding]; other site 994484001336 Switch I region; other site 994484001337 G2 box; other site 994484001338 G3 box; other site 994484001339 Switch II region; other site 994484001340 G4 box; other site 994484001341 G5 box; other site 994484001342 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 994484001343 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 994484001344 Flagellin N-methylase; Region: FliB; pfam03692 994484001345 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 994484001346 homodimer interface [polypeptide binding]; other site 994484001347 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 994484001348 active site pocket [active] 994484001349 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 994484001350 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 994484001351 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 994484001352 fructose-1,6-bisphosphatase family protein; Region: PLN02628 994484001353 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 994484001354 AMP binding site [chemical binding]; other site 994484001355 metal binding site [ion binding]; metal-binding site 994484001356 active site 994484001357 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 994484001358 Cache domain; Region: Cache_1; pfam02743 994484001359 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001360 dimerization interface [polypeptide binding]; other site 994484001361 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001363 dimer interface [polypeptide binding]; other site 994484001364 putative CheW interface [polypeptide binding]; other site 994484001365 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 994484001366 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 994484001367 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 994484001368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484001369 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484001370 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484001371 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 994484001372 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 994484001373 active site 994484001374 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 994484001375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484001376 DNA-binding site [nucleotide binding]; DNA binding site 994484001377 UTRA domain; Region: UTRA; pfam07702 994484001378 HutD; Region: HutD; pfam05962 994484001379 urocanate hydratase; Provisional; Region: PRK05414 994484001380 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484001381 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484001382 Na binding site [ion binding]; other site 994484001383 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484001384 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484001385 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484001386 dimer interface [polypeptide binding]; other site 994484001387 conserved gate region; other site 994484001388 putative PBP binding loops; other site 994484001389 ABC-ATPase subunit interface; other site 994484001390 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484001391 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 994484001392 Walker A/P-loop; other site 994484001393 ATP binding site [chemical binding]; other site 994484001394 Q-loop/lid; other site 994484001395 ABC transporter signature motif; other site 994484001396 Walker B; other site 994484001397 D-loop; other site 994484001398 H-loop/switch region; other site 994484001399 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 994484001400 active sites [active] 994484001401 tetramer interface [polypeptide binding]; other site 994484001402 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 994484001403 active sites [active] 994484001404 tetramer interface [polypeptide binding]; other site 994484001405 imidazolonepropionase; Validated; Region: PRK09356 994484001406 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 994484001407 active site 994484001408 N-formylglutamate amidohydrolase; Region: FGase; cl01522 994484001409 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484001410 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484001411 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 994484001412 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 994484001413 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 994484001414 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 994484001415 putative active site [active] 994484001416 dimerization interface [polypeptide binding]; other site 994484001417 putative tRNAtyr binding site [nucleotide binding]; other site 994484001418 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 994484001419 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 994484001420 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484001421 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 994484001422 Ligand binding site; other site 994484001423 DXD motif; other site 994484001424 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001425 dimerization interface [polypeptide binding]; other site 994484001426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001428 dimer interface [polypeptide binding]; other site 994484001429 putative CheW interface [polypeptide binding]; other site 994484001430 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484001431 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001432 dimerization interface [polypeptide binding]; other site 994484001433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001434 dimer interface [polypeptide binding]; other site 994484001435 putative CheW interface [polypeptide binding]; other site 994484001436 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001437 dimerization interface [polypeptide binding]; other site 994484001438 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001439 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001440 dimer interface [polypeptide binding]; other site 994484001441 putative CheW interface [polypeptide binding]; other site 994484001442 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 994484001443 RNA methyltransferase, RsmE family; Region: TIGR00046 994484001444 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 994484001445 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 994484001446 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 994484001447 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 994484001448 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 994484001449 metal binding site [ion binding]; metal-binding site 994484001450 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 994484001451 ABC1 family; Region: ABC1; cl17513 994484001452 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 994484001453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 994484001454 SCP-2 sterol transfer family; Region: SCP2; pfam02036 994484001455 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 994484001456 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 994484001457 S-adenosylmethionine binding site [chemical binding]; other site 994484001458 putative polyhydroxyalkanoic acid system protein; Region: PHA_gran_rgn; TIGR02610 994484001459 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 994484001460 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 994484001461 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484001462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484001463 Bacterial transcriptional repressor; Region: TetR; pfam13972 994484001464 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 994484001465 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 994484001466 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 994484001467 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 994484001468 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 994484001469 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 994484001470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 994484001471 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 994484001472 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484001473 Walker A motif; other site 994484001474 ATP binding site [chemical binding]; other site 994484001475 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 994484001476 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 994484001477 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 994484001478 active site 994484001479 HslU subunit interaction site [polypeptide binding]; other site 994484001480 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 994484001481 Sporulation related domain; Region: SPOR; pfam05036 994484001482 potential frameshift: common BLAST hit: gi|77456627|ref|YP_346132.1| arginyl-tRNA synthetase 994484001483 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 994484001484 KMSK motif region; other site 994484001485 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 994484001486 tRNA binding surface [nucleotide binding]; other site 994484001487 anticodon binding site; other site 994484001488 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 994484001489 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484001490 active site 994484001491 HIGH motif; other site 994484001492 nucleotide binding site [chemical binding]; other site 994484001493 primosome assembly protein PriA; Validated; Region: PRK05580 994484001494 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 994484001495 ATP binding site [chemical binding]; other site 994484001496 putative Mg++ binding site [ion binding]; other site 994484001497 helicase superfamily c-terminal domain; Region: HELICc; smart00490 994484001498 ATP-binding site [chemical binding]; other site 994484001499 ribosomal protein L31; Region: L31; TIGR00105 994484001500 Staphylococcal nuclease homologues; Region: SNc; smart00318 994484001501 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 994484001502 Catalytic site; other site 994484001503 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 994484001504 Malic enzyme, N-terminal domain; Region: malic; pfam00390 994484001505 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 994484001506 putative NAD(P) binding site [chemical binding]; other site 994484001507 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 994484001508 Transglycosylase; Region: Transgly; pfam00912 994484001509 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 994484001510 Competence protein A; Region: Competence_A; pfam11104 994484001511 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 994484001512 nucleotide binding site [chemical binding]; other site 994484001513 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 994484001514 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 994484001515 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 994484001516 Pilus assembly protein, PilP; Region: PilP; pfam04351 994484001517 AMIN domain; Region: AMIN; pfam11741 994484001518 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 994484001519 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484001520 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484001521 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 994484001522 shikimate kinase; Reviewed; Region: aroK; PRK00131 994484001523 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 994484001524 ADP binding site [chemical binding]; other site 994484001525 magnesium binding site [ion binding]; other site 994484001526 putative shikimate binding site; other site 994484001527 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 994484001528 active site 994484001529 dimer interface [polypeptide binding]; other site 994484001530 metal binding site [ion binding]; metal-binding site 994484001531 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 994484001532 Sporulation related domain; Region: SPOR; pfam05036 994484001533 potential frameshift: common BLAST hit: gi|70733957|ref|YP_257597.1| glutamate synthase subunit alpha 994484001534 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 994484001535 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 994484001536 active site 994484001537 dimer interface [polypeptide binding]; other site 994484001538 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 994484001539 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 994484001540 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 994484001541 active site 994484001542 FMN binding site [chemical binding]; other site 994484001543 substrate binding site [chemical binding]; other site 994484001544 3Fe-4S cluster binding site [ion binding]; other site 994484001545 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 994484001546 domain interface; other site 994484001547 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 994484001548 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 994484001549 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484001550 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 994484001551 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 994484001552 substrate binding site [chemical binding]; other site 994484001553 active site 994484001554 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484001555 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484001556 putative substrate translocation pore; other site 994484001557 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 994484001558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001559 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 994484001560 dimerization interface [polypeptide binding]; other site 994484001561 substrate binding pocket [chemical binding]; other site 994484001562 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484001563 PAAR motif; Region: PAAR_motif; pfam05488 994484001564 PAAR motif; Region: PAAR_motif; pfam05488 994484001565 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 994484001566 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 994484001567 dimer interface [polypeptide binding]; other site 994484001568 active site 994484001569 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 994484001570 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 994484001571 NAD(P) binding site [chemical binding]; other site 994484001572 homotetramer interface [polypeptide binding]; other site 994484001573 homodimer interface [polypeptide binding]; other site 994484001574 active site 994484001575 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 994484001576 putative active site 1 [active] 994484001577 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 994484001578 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 994484001579 dimer interface [polypeptide binding]; other site 994484001580 active site 994484001581 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484001582 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 994484001583 S-adenosylmethionine binding site [chemical binding]; other site 994484001584 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 994484001585 Predicted exporter [General function prediction only]; Region: COG4258 994484001586 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 994484001587 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 994484001588 active site 994484001589 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 994484001590 active sites [active] 994484001591 tetramer interface [polypeptide binding]; other site 994484001592 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 994484001593 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 994484001594 putative acyl-acceptor binding pocket; other site 994484001595 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 994484001596 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 994484001597 Ligand binding site; other site 994484001598 Putative Catalytic site; other site 994484001599 DXD motif; other site 994484001600 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 994484001601 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484001602 active site 994484001603 AMP binding site [chemical binding]; other site 994484001604 acyl-activating enzyme (AAE) consensus motif; other site 994484001605 CoA binding site [chemical binding]; other site 994484001606 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 elongation; Region: FabA_FabZ; cd00493 994484001607 active site 2 [active] 994484001608 dimer interface [polypeptide binding]; other site 994484001609 active site 1 [active] 994484001610 Predicted membrane protein [Function unknown]; Region: COG4648 994484001611 acyl carrier protein; Provisional; Region: PRK05350 994484001612 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484001613 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484001614 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484001615 putative acyl-acceptor binding pocket; other site 994484001616 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 994484001617 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484001618 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 994484001619 P-loop; other site 994484001620 Magnesium ion binding site [ion binding]; other site 994484001621 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 994484001622 Magnesium ion binding site [ion binding]; other site 994484001623 thioredoxin 2; Provisional; Region: PRK10996 994484001624 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 994484001625 catalytic residues [active] 994484001626 Isochorismatase family; Region: Isochorismatase; pfam00857 994484001627 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 994484001628 catalytic triad [active] 994484001629 dimer interface [polypeptide binding]; other site 994484001630 conserved cis-peptide bond; other site 994484001631 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484001632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001633 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 994484001634 putative effector binding pocket; other site 994484001635 putative dimerization interface [polypeptide binding]; other site 994484001636 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 994484001637 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 994484001638 non-specific DNA binding site [nucleotide binding]; other site 994484001639 salt bridge; other site 994484001640 sequence-specific DNA binding site [nucleotide binding]; other site 994484001641 Uncharacterized conserved protein [Function unknown]; Region: COG0397 994484001642 hypothetical protein; Validated; Region: PRK00029 994484001643 hypothetical protein; Provisional; Region: PRK11281 994484001644 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 994484001645 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484001646 potassium/proton antiporter; Reviewed; Region: PRK05326 994484001647 TrkA-C domain; Region: TrkA_C; pfam02080 994484001648 Transporter associated domain; Region: CorC_HlyC; smart01091 994484001649 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484001650 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001651 dimerization interface [polypeptide binding]; other site 994484001652 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484001653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001654 dimer interface [polypeptide binding]; other site 994484001655 putative CheW interface [polypeptide binding]; other site 994484001656 Cell division protein ZapA; Region: ZapA; pfam05164 994484001657 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484001658 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484001659 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484001660 active site 994484001661 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484001662 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 994484001663 Predicted transcriptional regulator [Transcription]; Region: COG3905 994484001664 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 994484001665 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 994484001666 Glutamate binding site [chemical binding]; other site 994484001667 NAD binding site [chemical binding]; other site 994484001668 catalytic residues [active] 994484001669 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 994484001670 Na binding site [ion binding]; other site 994484001671 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 994484001672 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484001673 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484001674 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 994484001675 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 994484001676 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 994484001677 methionine sulfoxide reductase A; Provisional; Region: PRK00058 994484001678 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484001679 GAF domain; Region: GAF; pfam01590 994484001680 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 994484001681 PAS domain; Region: PAS_9; pfam13426 994484001682 putative active site [active] 994484001683 heme pocket [chemical binding]; other site 994484001684 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484001685 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484001686 metal binding site [ion binding]; metal-binding site 994484001687 active site 994484001688 I-site; other site 994484001689 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 994484001690 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484001691 putative active site [active] 994484001692 putative metal binding site [ion binding]; other site 994484001693 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 994484001694 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 994484001695 E3 interaction surface; other site 994484001696 lipoyl attachment site [posttranslational modification]; other site 994484001697 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 994484001698 E3 interaction surface; other site 994484001699 lipoyl attachment site [posttranslational modification]; other site 994484001700 e3 binding domain; Region: E3_binding; pfam02817 994484001701 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 994484001702 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 994484001703 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 994484001704 dimer interface [polypeptide binding]; other site 994484001705 TPP-binding site [chemical binding]; other site 994484001706 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 994484001707 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484001708 metal binding triad; other site 994484001709 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 994484001710 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484001711 metal binding triad; other site 994484001712 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 994484001713 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 994484001714 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 994484001715 putative active site [active] 994484001716 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 994484001717 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 994484001718 putative active site [active] 994484001719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484001720 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 994484001721 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 994484001722 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 994484001723 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 994484001724 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 994484001725 active site 994484001726 ATP binding site [chemical binding]; other site 994484001727 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 994484001728 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 994484001729 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 994484001730 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 994484001731 putative ADP-binding pocket [chemical binding]; other site 994484001732 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484001733 Mig-14; Region: Mig-14; pfam07395 994484001734 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 994484001735 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 994484001736 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 994484001737 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484001738 putative ADP-binding pocket [chemical binding]; other site 994484001739 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 994484001740 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 994484001741 active site 994484001742 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 994484001743 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 994484001744 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 994484001745 active site 994484001746 substrate binding site [chemical binding]; other site 994484001747 ATP binding site [chemical binding]; other site 994484001748 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 994484001749 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484001750 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 994484001751 Walker A/P-loop; other site 994484001752 ATP binding site [chemical binding]; other site 994484001753 Q-loop/lid; other site 994484001754 ABC transporter signature motif; other site 994484001755 Walker B; other site 994484001756 D-loop; other site 994484001757 H-loop/switch region; other site 994484001758 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 994484001759 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 994484001760 ligand-binding site [chemical binding]; other site 994484001761 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 994484001762 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 994484001763 putative ribose interaction site [chemical binding]; other site 994484001764 putative ADP binding site [chemical binding]; other site 994484001765 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 994484001766 active site 994484001767 nucleotide binding site [chemical binding]; other site 994484001768 HIGH motif; other site 994484001769 KMSKS motif; other site 994484001770 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484001771 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 994484001772 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484001773 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484001774 active site 994484001775 catalytic tetrad [active] 994484001776 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 994484001777 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484001778 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 994484001779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484001780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001781 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 994484001782 dimerization interface [polypeptide binding]; other site 994484001783 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 994484001784 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 994484001785 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 994484001786 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484001787 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 994484001788 ThiC-associated domain; Region: ThiC-associated; pfam13667 994484001789 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 994484001790 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 994484001791 Na binding site [ion binding]; other site 994484001792 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 994484001793 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 994484001794 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 994484001795 dimer interface [polypeptide binding]; other site 994484001796 ADP-ribose binding site [chemical binding]; other site 994484001797 active site 994484001798 nudix motif; other site 994484001799 metal binding site [ion binding]; metal-binding site 994484001800 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 994484001801 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 994484001802 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484001803 active site 994484001804 metal binding site [ion binding]; metal-binding site 994484001805 hexamer interface [polypeptide binding]; other site 994484001806 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 994484001807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484001808 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 994484001809 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 994484001810 ATP binding site [chemical binding]; other site 994484001811 Mg2+ binding site [ion binding]; other site 994484001812 G-X-G motif; other site 994484001813 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 994484001814 anchoring element; other site 994484001815 dimer interface [polypeptide binding]; other site 994484001816 ATP binding site [chemical binding]; other site 994484001817 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 994484001818 active site 994484001819 metal binding site [ion binding]; metal-binding site 994484001820 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 994484001821 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 994484001822 catalytic motif [active] 994484001823 Catalytic residue [active] 994484001824 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 994484001825 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 994484001826 CAP-like domain; other site 994484001827 active site 994484001828 primary dimer interface [polypeptide binding]; other site 994484001829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 994484001830 Protein of unknown function (DUF330); Region: DUF330; pfam03886 994484001831 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 994484001832 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 994484001833 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 994484001834 phosphoserine phosphatase SerB; Region: serB; TIGR00338 994484001835 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 994484001836 motif II; other site 994484001837 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 994484001838 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 994484001839 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 994484001840 active site residue [active] 994484001841 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 994484001842 active site residue [active] 994484001843 HDOD domain; Region: HDOD; pfam08668 994484001844 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 994484001845 flagellar motor protein MotA; Validated; Region: PRK09110 994484001846 flagellar motor protein MotB; Validated; Region: motB; PRK09041 994484001847 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 994484001848 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484001849 ligand binding site [chemical binding]; other site 994484001850 GTPase RsgA; Reviewed; Region: PRK12288 994484001851 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 994484001852 RNA binding site [nucleotide binding]; other site 994484001853 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 994484001854 GTPase/Zn-binding domain interface [polypeptide binding]; other site 994484001855 GTP/Mg2+ binding site [chemical binding]; other site 994484001856 G4 box; other site 994484001857 G5 box; other site 994484001858 G1 box; other site 994484001859 Switch I region; other site 994484001860 G2 box; other site 994484001861 G3 box; other site 994484001862 Switch II region; other site 994484001863 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 994484001864 catalytic site [active] 994484001865 putative active site [active] 994484001866 putative substrate binding site [chemical binding]; other site 994484001867 dimer interface [polypeptide binding]; other site 994484001868 Predicted membrane protein [Function unknown]; Region: COG2860 994484001869 UPF0126 domain; Region: UPF0126; pfam03458 994484001870 UPF0126 domain; Region: UPF0126; pfam03458 994484001871 epoxyqueuosine reductase; Region: TIGR00276 994484001872 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 994484001873 putative carbohydrate kinase; Provisional; Region: PRK10565 994484001874 Uncharacterized conserved protein [Function unknown]; Region: COG0062 994484001875 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 994484001876 putative substrate binding site [chemical binding]; other site 994484001877 putative ATP binding site [chemical binding]; other site 994484001878 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 994484001879 AMIN domain; Region: AMIN; pfam11741 994484001880 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 994484001881 active site 994484001882 metal binding site [ion binding]; metal-binding site 994484001883 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484001884 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 994484001885 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 994484001886 ATP binding site [chemical binding]; other site 994484001887 Mg2+ binding site [ion binding]; other site 994484001888 G-X-G motif; other site 994484001889 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 994484001890 ATP binding site [chemical binding]; other site 994484001891 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 994484001892 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 994484001893 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 994484001894 bacterial Hfq-like; Region: Hfq; cd01716 994484001895 hexamer interface [polypeptide binding]; other site 994484001896 Sm1 motif; other site 994484001897 RNA binding site [nucleotide binding]; other site 994484001898 Sm2 motif; other site 994484001899 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 994484001900 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 994484001901 HflX GTPase family; Region: HflX; cd01878 994484001902 G1 box; other site 994484001903 GTP/Mg2+ binding site [chemical binding]; other site 994484001904 Switch I region; other site 994484001905 G2 box; other site 994484001906 G3 box; other site 994484001907 Switch II region; other site 994484001908 G4 box; other site 994484001909 G5 box; other site 994484001910 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 994484001911 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 994484001912 HflK protein; Region: hflK; TIGR01933 994484001913 HflC protein; Region: hflC; TIGR01932 994484001914 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 994484001915 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 994484001916 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 994484001917 dimer interface [polypeptide binding]; other site 994484001918 motif 1; other site 994484001919 active site 994484001920 motif 2; other site 994484001921 motif 3; other site 994484001922 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 994484001923 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 994484001924 GDP-binding site [chemical binding]; other site 994484001925 ACT binding site; other site 994484001926 IMP binding site; other site 994484001927 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484001928 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484001929 dimerization interface [polypeptide binding]; other site 994484001930 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484001931 dimer interface [polypeptide binding]; other site 994484001932 putative CheW interface [polypeptide binding]; other site 994484001933 ribonuclease R; Region: RNase_R; TIGR02063 994484001934 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 994484001935 RNB domain; Region: RNB; pfam00773 994484001936 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 994484001937 RNA binding site [nucleotide binding]; other site 994484001938 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 994484001939 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 994484001940 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 994484001941 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 994484001942 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 994484001943 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 994484001944 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 994484001945 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 994484001946 replicative DNA helicase; Provisional; Region: PRK05748 994484001947 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 994484001948 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 994484001949 Walker A motif; other site 994484001950 ATP binding site [chemical binding]; other site 994484001951 Walker B motif; other site 994484001952 DNA binding loops [nucleotide binding] 994484001953 hypothetical protein; Provisional; Region: PRK01254 994484001954 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 994484001955 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 994484001956 Inositol polyphosphate kinase; Region: IPK; cl12283 994484001957 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484001958 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 994484001959 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 994484001960 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 994484001961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 994484001962 Uncharacterized conserved protein [Function unknown]; Region: COG2308 994484001963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 994484001964 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 994484001965 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 994484001966 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484001967 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 994484001968 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 994484001969 active site 994484001970 8-oxo-dGMP binding site [chemical binding]; other site 994484001971 nudix motif; other site 994484001972 metal binding site [ion binding]; metal-binding site 994484001973 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 994484001974 azurin; Region: azurin; TIGR02695 994484001975 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 994484001976 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 994484001977 homodimer interface [polypeptide binding]; other site 994484001978 NAD binding pocket [chemical binding]; other site 994484001979 ATP binding pocket [chemical binding]; other site 994484001980 Mg binding site [ion binding]; other site 994484001981 active-site loop [active] 994484001982 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 994484001983 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 994484001984 active site 994484001985 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484001986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484001987 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 994484001988 dimerization interface [polypeptide binding]; other site 994484001989 substrate binding pocket [chemical binding]; other site 994484001990 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 994484001991 aldehyde dehydrogenase family 7 member; Region: PLN02315 994484001992 tetrameric interface [polypeptide binding]; other site 994484001993 NAD binding site [chemical binding]; other site 994484001994 catalytic residues [active] 994484001995 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484001996 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484001997 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484001998 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 994484001999 dimerization interface [polypeptide binding]; other site 994484002000 ligand binding site [chemical binding]; other site 994484002001 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484002002 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 994484002003 TM-ABC transporter signature motif; other site 994484002004 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 994484002005 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 994484002006 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 994484002007 TM-ABC transporter signature motif; other site 994484002008 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 994484002009 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 994484002010 Walker A/P-loop; other site 994484002011 ATP binding site [chemical binding]; other site 994484002012 Q-loop/lid; other site 994484002013 ABC transporter signature motif; other site 994484002014 Walker B; other site 994484002015 D-loop; other site 994484002016 H-loop/switch region; other site 994484002017 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484002018 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 994484002019 Walker A/P-loop; other site 994484002020 ATP binding site [chemical binding]; other site 994484002021 Q-loop/lid; other site 994484002022 ABC transporter signature motif; other site 994484002023 Walker B; other site 994484002024 D-loop; other site 994484002025 H-loop/switch region; other site 994484002026 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 994484002027 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 994484002028 putative NAD(P) binding site [chemical binding]; other site 994484002029 homotetramer interface [polypeptide binding]; other site 994484002030 homodimer interface [polypeptide binding]; other site 994484002031 active site 994484002032 dimerization interface [polypeptide binding]; other site 994484002033 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 994484002034 putative active cleft [active] 994484002035 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 994484002036 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484002037 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 994484002038 UreF; Region: UreF; pfam01730 994484002039 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 994484002040 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 994484002041 dimer interface [polypeptide binding]; other site 994484002042 catalytic residues [active] 994484002043 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 994484002044 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484002045 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 994484002046 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 994484002047 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 994484002048 Ferritin-like domain; Region: Ferritin; pfam00210 994484002049 dinuclear metal binding motif [ion binding]; other site 994484002050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002052 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 994484002053 dimerization interface [polypeptide binding]; other site 994484002054 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484002055 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484002056 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 994484002057 Lipase (class 2); Region: Lipase_2; pfam01674 994484002058 hypothetical protein; Provisional; Region: PRK11505 994484002059 psiF repeat; Region: PsiF_repeat; pfam07769 994484002060 psiF repeat; Region: PsiF_repeat; pfam07769 994484002061 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 994484002062 putative chaperone; Provisional; Region: PRK11678 994484002063 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 994484002064 nucleotide binding site [chemical binding]; other site 994484002065 putative NEF/HSP70 interaction site [polypeptide binding]; other site 994484002066 SBD interface [polypeptide binding]; other site 994484002067 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 994484002068 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 994484002069 HSP70 interaction site [polypeptide binding]; other site 994484002070 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 994484002071 substrate binding site [polypeptide binding]; other site 994484002072 dimer interface [polypeptide binding]; other site 994484002073 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 994484002074 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 994484002075 Leucine rich repeat; Region: LRR_8; pfam13855 994484002076 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 994484002077 urease subunit alpha; Reviewed; Region: ureC; PRK13207 994484002078 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 994484002079 subunit interactions [polypeptide binding]; other site 994484002080 active site 994484002081 flap region; other site 994484002082 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 994484002083 gamma-beta subunit interface [polypeptide binding]; other site 994484002084 alpha-beta subunit interface [polypeptide binding]; other site 994484002085 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484002086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484002087 Coenzyme A binding pocket [chemical binding]; other site 994484002088 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 994484002089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484002090 Coenzyme A binding pocket [chemical binding]; other site 994484002091 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 994484002092 alpha-gamma subunit interface [polypeptide binding]; other site 994484002093 beta-gamma subunit interface [polypeptide binding]; other site 994484002094 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 994484002095 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 994484002096 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 994484002097 Walker A/P-loop; other site 994484002098 ATP binding site [chemical binding]; other site 994484002099 Q-loop/lid; other site 994484002100 ABC transporter signature motif; other site 994484002101 Walker B; other site 994484002102 D-loop; other site 994484002103 H-loop/switch region; other site 994484002104 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 994484002105 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 994484002106 Walker A/P-loop; other site 994484002107 ATP binding site [chemical binding]; other site 994484002108 Q-loop/lid; other site 994484002109 ABC transporter signature motif; other site 994484002110 Walker B; other site 994484002111 D-loop; other site 994484002112 H-loop/switch region; other site 994484002113 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 994484002114 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 994484002115 TM-ABC transporter signature motif; other site 994484002116 HEAT repeats; Region: HEAT_2; pfam13646 994484002117 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 994484002118 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484002119 TM-ABC transporter signature motif; other site 994484002120 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 994484002121 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 994484002122 putative ligand binding site [chemical binding]; other site 994484002123 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 994484002124 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 994484002125 ABC-ATPase subunit interface; other site 994484002126 dimer interface [polypeptide binding]; other site 994484002127 putative PBP binding regions; other site 994484002128 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 994484002129 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 994484002130 putative ligand binding residues [chemical binding]; other site 994484002131 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 994484002132 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 994484002133 Walker A/P-loop; other site 994484002134 ATP binding site [chemical binding]; other site 994484002135 Q-loop/lid; other site 994484002136 ABC transporter signature motif; other site 994484002137 Walker B; other site 994484002138 D-loop; other site 994484002139 H-loop/switch region; other site 994484002140 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484002141 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 994484002142 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484002143 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 994484002144 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484002145 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 994484002146 N-terminal plug; other site 994484002147 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 994484002148 ligand-binding site [chemical binding]; other site 994484002149 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 994484002150 Protein of unknown function (DUF461); Region: DUF461; pfam04314 994484002151 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 994484002152 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 994484002153 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 994484002154 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 994484002155 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 994484002156 active site 994484002157 putative homodimer interface [polypeptide binding]; other site 994484002158 SAM binding site [chemical binding]; other site 994484002159 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 994484002160 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 994484002161 S-adenosylmethionine binding site [chemical binding]; other site 994484002162 precorrin-3B synthase; Region: CobG; TIGR02435 994484002163 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484002164 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484002165 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 994484002166 Precorrin-8X methylmutase; Region: CbiC; pfam02570 994484002167 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 994484002168 active site 994484002169 SAM binding site [chemical binding]; other site 994484002170 homodimer interface [polypeptide binding]; other site 994484002171 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 994484002172 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 994484002173 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 994484002174 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 994484002175 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 994484002176 active site 994484002177 SAM binding site [chemical binding]; other site 994484002178 homodimer interface [polypeptide binding]; other site 994484002179 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 994484002180 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 994484002181 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 994484002182 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 994484002183 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 994484002184 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484002185 dimer interface [polypeptide binding]; other site 994484002186 phosphorylation site [posttranslational modification] 994484002187 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 994484002188 ATP binding site [chemical binding]; other site 994484002189 Mg2+ binding site [ion binding]; other site 994484002190 G-X-G motif; other site 994484002191 Response regulator receiver domain; Region: Response_reg; pfam00072 994484002192 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 994484002193 active site 994484002194 phosphorylation site [posttranslational modification] 994484002195 intermolecular recognition site; other site 994484002196 dimerization interface [polypeptide binding]; other site 994484002197 Response regulator receiver domain; Region: Response_reg; pfam00072 994484002198 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 994484002199 active site 994484002200 phosphorylation site [posttranslational modification] 994484002201 intermolecular recognition site; other site 994484002202 dimerization interface [polypeptide binding]; other site 994484002203 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 994484002204 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 994484002205 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 994484002206 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 994484002207 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 994484002208 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 994484002209 purine monophosphate binding site [chemical binding]; other site 994484002210 dimer interface [polypeptide binding]; other site 994484002211 putative catalytic residues [active] 994484002212 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 994484002213 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 994484002214 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 994484002215 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 994484002216 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 994484002217 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 994484002218 FMN binding site [chemical binding]; other site 994484002219 active site 994484002220 catalytic residues [active] 994484002221 substrate binding site [chemical binding]; other site 994484002222 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 994484002223 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 994484002224 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 994484002225 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 994484002226 S-adenosylmethionine binding site [chemical binding]; other site 994484002227 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 994484002228 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484002229 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 994484002230 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 994484002231 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 994484002232 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 994484002233 carboxyltransferase (CT) interaction site; other site 994484002234 biotinylation site [posttranslational modification]; other site 994484002235 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 994484002236 Dehydroquinase class II; Region: DHquinase_II; pfam01220 994484002237 active site 994484002238 trimer interface [polypeptide binding]; other site 994484002239 dimer interface [polypeptide binding]; other site 994484002240 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484002242 dimer interface [polypeptide binding]; other site 994484002243 putative CheW interface [polypeptide binding]; other site 994484002244 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 994484002245 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 994484002246 active site 994484002247 phosphorylation site [posttranslational modification] 994484002248 intermolecular recognition site; other site 994484002249 dimerization interface [polypeptide binding]; other site 994484002250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484002251 metal binding site [ion binding]; metal-binding site 994484002252 active site 994484002253 I-site; other site 994484002254 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 994484002255 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 994484002256 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 994484002257 nudix motif; other site 994484002258 translation initiation factor Sui1; Validated; Region: PRK06824 994484002259 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 994484002260 putative rRNA binding site [nucleotide binding]; other site 994484002261 arginine decarboxylase; Provisional; Region: PRK05354 994484002262 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 994484002263 dimer interface [polypeptide binding]; other site 994484002264 active site 994484002265 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484002266 catalytic residues [active] 994484002267 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 994484002268 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 994484002269 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484002270 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 994484002271 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 994484002272 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 994484002273 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 994484002274 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 994484002275 homodimer interface [polypeptide binding]; other site 994484002276 chemical substrate binding site [chemical binding]; other site 994484002277 oligomer interface [polypeptide binding]; other site 994484002278 metal binding site [ion binding]; metal-binding site 994484002279 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 994484002280 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 994484002281 S-adenosylmethionine binding site [chemical binding]; other site 994484002282 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 994484002283 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 994484002284 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 994484002285 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 994484002286 active site 2 [active] 994484002287 active site 1 [active] 994484002288 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 994484002289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002290 NAD(P) binding site [chemical binding]; other site 994484002291 active site 994484002292 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 994484002293 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 994484002294 dimer interface [polypeptide binding]; other site 994484002295 active site 994484002296 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 994484002297 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 994484002298 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484002299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484002300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484002301 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 994484002302 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 994484002303 ATP binding site [chemical binding]; other site 994484002304 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 994484002305 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 994484002306 DNA binding residues [nucleotide binding] 994484002307 dimer interface [polypeptide binding]; other site 994484002308 copper binding site [ion binding]; other site 994484002309 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484002310 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 994484002311 metal-binding site [ion binding] 994484002312 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484002313 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 994484002314 metal-binding site [ion binding] 994484002315 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484002316 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 994484002317 metal-binding site [ion binding] 994484002318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484002319 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 994484002320 putative substrate translocation pore; other site 994484002321 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 994484002322 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 994484002323 putative NAD(P) binding site [chemical binding]; other site 994484002324 dimer interface [polypeptide binding]; other site 994484002325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002327 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 994484002328 putative effector binding pocket; other site 994484002329 dimerization interface [polypeptide binding]; other site 994484002330 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 994484002331 dimerization interface [polypeptide binding]; other site 994484002332 putative DNA binding site [nucleotide binding]; other site 994484002333 putative Zn2+ binding site [ion binding]; other site 994484002334 benzoate transport; Region: 2A0115; TIGR00895 994484002335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484002336 putative substrate translocation pore; other site 994484002337 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484002338 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 994484002339 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 994484002340 active site 994484002341 purine riboside binding site [chemical binding]; other site 994484002342 oxidase reductase; Provisional; Region: PTZ00273 994484002343 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 994484002344 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 994484002345 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 994484002346 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 994484002347 putative ligand binding site [chemical binding]; other site 994484002348 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 994484002349 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 994484002350 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 994484002351 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 994484002352 active site 994484002353 putative substrate binding pocket [chemical binding]; other site 994484002354 C factor cell-cell signaling protein; Provisional; Region: PRK09009 994484002355 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 994484002356 NADP binding site [chemical binding]; other site 994484002357 homodimer interface [polypeptide binding]; other site 994484002358 active site 994484002359 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 994484002360 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 994484002361 DNA binding residues [nucleotide binding] 994484002362 dimer interface [polypeptide binding]; other site 994484002363 metal binding site [ion binding]; metal-binding site 994484002364 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484002365 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 994484002366 TM-ABC transporter signature motif; other site 994484002367 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484002368 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 994484002369 TM-ABC transporter signature motif; other site 994484002370 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 994484002371 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 994484002372 Walker A/P-loop; other site 994484002373 ATP binding site [chemical binding]; other site 994484002374 Q-loop/lid; other site 994484002375 ABC transporter signature motif; other site 994484002376 Walker B; other site 994484002377 D-loop; other site 994484002378 H-loop/switch region; other site 994484002379 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 994484002380 Uncharacterized conserved protein [Function unknown]; Region: COG1739 994484002381 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 994484002382 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 994484002383 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 994484002384 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484002385 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 994484002386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002388 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 994484002389 dimerization interface [polypeptide binding]; other site 994484002390 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 994484002391 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 994484002392 inhibitor-cofactor binding pocket; inhibition site 994484002393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484002394 catalytic residue [active] 994484002395 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 994484002396 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 994484002397 tetrameric interface [polypeptide binding]; other site 994484002398 NAD binding site [chemical binding]; other site 994484002399 catalytic residues [active] 994484002400 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 994484002401 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 994484002402 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 994484002403 Part of AAA domain; Region: AAA_19; pfam13245 994484002404 Family description; Region: UvrD_C_2; pfam13538 994484002405 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 994484002406 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 994484002407 AAA domain; Region: AAA_30; pfam13604 994484002408 Family description; Region: UvrD_C_2; pfam13538 994484002409 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 994484002410 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484002411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484002412 metal binding site [ion binding]; metal-binding site 994484002413 active site 994484002414 I-site; other site 994484002415 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484002416 ligand binding site [chemical binding]; other site 994484002417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002419 LysR substrate binding domain; Region: LysR_substrate; pfam03466 994484002420 dimerization interface [polypeptide binding]; other site 994484002421 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 994484002422 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 994484002423 tetrameric interface [polypeptide binding]; other site 994484002424 NAD binding site [chemical binding]; other site 994484002425 catalytic residues [active] 994484002426 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 994484002427 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 994484002428 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 994484002429 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002431 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 994484002432 putative dimerization interface [polypeptide binding]; other site 994484002433 Uncharacterized conserved protein [Function unknown]; Region: COG1359 994484002434 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 994484002435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002437 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 994484002438 dimerization interface [polypeptide binding]; other site 994484002439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484002440 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484002441 NAD(P) binding site [chemical binding]; other site 994484002442 active site 994484002443 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 994484002444 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 994484002445 Sulfate transporter family; Region: Sulfate_transp; pfam00916 994484002446 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 994484002447 GntP family permease; Region: GntP_permease; pfam02447 994484002448 fructuronate transporter; Provisional; Region: PRK10034; cl15264 994484002449 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484002450 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 994484002451 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 994484002452 putative active site [active] 994484002453 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 994484002454 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 994484002455 active site 994484002456 putative substrate binding pocket [chemical binding]; other site 994484002457 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 994484002458 dimer interface [polypeptide binding]; other site 994484002459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484002460 ligand binding site [chemical binding]; other site 994484002461 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484002462 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484002463 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 994484002464 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 994484002465 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 994484002466 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 994484002467 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484002468 dimerization interface [polypeptide binding]; other site 994484002469 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002470 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484002471 dimer interface [polypeptide binding]; other site 994484002472 putative CheW interface [polypeptide binding]; other site 994484002473 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 994484002474 catalytic core [active] 994484002475 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 994484002476 active site 994484002477 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 994484002478 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 994484002479 dimer interface [polypeptide binding]; other site 994484002480 active site 994484002481 heme binding site [chemical binding]; other site 994484002482 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 994484002483 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484002484 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 994484002485 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484002486 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484002487 Walker A/P-loop; other site 994484002488 ATP binding site [chemical binding]; other site 994484002489 Q-loop/lid; other site 994484002490 ABC transporter signature motif; other site 994484002491 Walker B; other site 994484002492 D-loop; other site 994484002493 H-loop/switch region; other site 994484002494 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002495 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484002496 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484002497 Walker A/P-loop; other site 994484002498 ATP binding site [chemical binding]; other site 994484002499 Q-loop/lid; other site 994484002500 ABC transporter signature motif; other site 994484002501 Walker B; other site 994484002502 D-loop; other site 994484002503 H-loop/switch region; other site 994484002504 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002505 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 994484002506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484002507 dimer interface [polypeptide binding]; other site 994484002508 conserved gate region; other site 994484002509 putative PBP binding loops; other site 994484002510 ABC-ATPase subunit interface; other site 994484002511 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484002512 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484002513 dimer interface [polypeptide binding]; other site 994484002514 conserved gate region; other site 994484002515 putative PBP binding loops; other site 994484002516 ABC-ATPase subunit interface; other site 994484002517 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484002518 Autoinducer binding domain; Region: Autoind_bind; pfam03472 994484002519 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484002520 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484002521 DNA binding residues [nucleotide binding] 994484002522 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 994484002523 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 994484002524 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 994484002525 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 994484002526 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 994484002527 haemagglutination activity domain; Region: Haemagg_act; pfam05860 994484002528 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 994484002529 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484002530 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484002531 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484002532 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484002533 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484002534 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484002535 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 994484002536 short chain dehydrogenase; Provisional; Region: PRK06180 994484002537 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 994484002538 NADP binding site [chemical binding]; other site 994484002539 active site 994484002540 steroid binding site; other site 994484002541 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484002542 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484002543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484002544 2-isopropylmalate synthase; Validated; Region: PRK03739 994484002545 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 994484002546 active site 994484002547 catalytic residues [active] 994484002548 metal binding site [ion binding]; metal-binding site 994484002549 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 994484002550 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 994484002551 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 994484002552 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 994484002553 non-specific DNA binding site [nucleotide binding]; other site 994484002554 salt bridge; other site 994484002555 sequence-specific DNA binding site [nucleotide binding]; other site 994484002556 Domain of unknown function (DUF932); Region: DUF932; cl12129 994484002557 WYL domain; Region: WYL; pfam13280 994484002558 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 994484002559 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 994484002560 Calmodulin-binding; Region: Enkurin; pfam13864 994484002561 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 994484002562 Uncharacterized conserved protein [Function unknown]; Region: COG1479 994484002563 Protein of unknown function DUF262; Region: DUF262; pfam03235 994484002564 Protein of unknown function DUF262; Region: DUF262; pfam03235 994484002565 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 994484002566 TIGR02687 family protein; Region: TIGR02687 994484002567 PglZ domain; Region: PglZ; pfam08665 994484002568 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 994484002569 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 994484002570 hypothetical protein; Reviewed; Region: PRK00024 994484002571 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 994484002572 MPN+ (JAMM) motif; other site 994484002573 Zinc-binding site [ion binding]; other site 994484002574 potential frameshift: common BLAST hit: gi|167035734|ref|YP_001670965.1| phage-like protein endonuclease-like protein 994484002575 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 994484002576 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 994484002577 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 994484002578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484002579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484002580 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 994484002581 dimerization interface [polypeptide binding]; other site 994484002582 substrate binding pocket [chemical binding]; other site 994484002583 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 994484002584 active site 994484002585 homodimer interface [polypeptide binding]; other site 994484002586 homotetramer interface [polypeptide binding]; other site 994484002587 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 994484002588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 994484002589 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 994484002590 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 994484002591 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 994484002592 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 994484002593 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 994484002594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 994484002595 Transposase; Region: HTH_Tnp_1; pfam01527 994484002596 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 994484002597 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 994484002598 putative active site [active] 994484002599 putative metal-binding site [ion binding]; other site 994484002600 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 994484002601 Part of AAA domain; Region: AAA_19; pfam13245 994484002602 Family description; Region: UvrD_C_2; pfam13538 994484002603 integrase; Provisional; Region: PRK09692 994484002604 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 994484002605 active site 994484002606 Int/Topo IB signature motif; other site 994484002607 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 994484002608 FAD binding domain; Region: FAD_binding_4; pfam01565 994484002609 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 994484002610 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 994484002611 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 994484002612 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 994484002613 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 994484002614 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 994484002615 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 994484002616 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 994484002617 Cysteine-rich domain; Region: CCG; pfam02754 994484002618 Cysteine-rich domain; Region: CCG; pfam02754 994484002619 glycolate transporter; Provisional; Region: PRK09695 994484002620 L-lactate permease; Region: Lactate_perm; cl00701 994484002621 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484002622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484002623 DNA-binding site [nucleotide binding]; DNA binding site 994484002624 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484002625 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 994484002626 SmpB-tmRNA interface; other site 994484002627 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 994484002628 Na2 binding site [ion binding]; other site 994484002629 putative substrate binding site 1 [chemical binding]; other site 994484002630 Na binding site 1 [ion binding]; other site 994484002631 putative substrate binding site 2 [chemical binding]; other site 994484002632 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 994484002633 putative coenzyme Q binding site [chemical binding]; other site 994484002634 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 994484002635 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 994484002636 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 994484002637 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 994484002638 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 994484002639 metal binding site 2 [ion binding]; metal-binding site 994484002640 putative DNA binding helix; other site 994484002641 metal binding site 1 [ion binding]; metal-binding site 994484002642 dimer interface [polypeptide binding]; other site 994484002643 structural Zn2+ binding site [ion binding]; other site 994484002644 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 994484002645 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 994484002646 Walker A/P-loop; other site 994484002647 ATP binding site [chemical binding]; other site 994484002648 Q-loop/lid; other site 994484002649 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 994484002650 ABC transporter signature motif; other site 994484002651 Walker B; other site 994484002652 D-loop; other site 994484002653 H-loop/switch region; other site 994484002654 GrpE; Region: GrpE; pfam01025 994484002655 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 994484002656 dimer interface [polypeptide binding]; other site 994484002657 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 994484002658 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 994484002659 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 994484002660 nucleotide binding site [chemical binding]; other site 994484002661 chaperone protein DnaJ; Provisional; Region: PRK10767 994484002662 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 994484002663 HSP70 interaction site [polypeptide binding]; other site 994484002664 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 994484002665 substrate binding site [polypeptide binding]; other site 994484002666 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 994484002667 Zn binding sites [ion binding]; other site 994484002668 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 994484002669 dimer interface [polypeptide binding]; other site 994484002670 dihydrodipicolinate reductase; Provisional; Region: PRK00048 994484002671 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 994484002672 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 994484002673 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 994484002674 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 994484002675 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 994484002676 catalytic site [active] 994484002677 subunit interface [polypeptide binding]; other site 994484002678 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 994484002679 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484002680 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 994484002681 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 994484002682 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484002683 ATP-grasp domain; Region: ATP-grasp_4; cl17255 994484002684 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 994484002685 IMP binding site; other site 994484002686 dimer interface [polypeptide binding]; other site 994484002687 interdomain contacts; other site 994484002688 partial ornithine binding site; other site 994484002689 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 994484002690 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 994484002691 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 994484002692 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 994484002693 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 994484002694 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 994484002695 S-adenosylmethionine binding site [chemical binding]; other site 994484002696 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 994484002697 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484002698 Walker A motif; other site 994484002699 ATP binding site [chemical binding]; other site 994484002700 Walker B motif; other site 994484002701 arginine finger; other site 994484002702 Peptidase family M41; Region: Peptidase_M41; pfam01434 994484002703 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 994484002704 dihydropteroate synthase; Region: DHPS; TIGR01496 994484002705 substrate binding pocket [chemical binding]; other site 994484002706 dimer interface [polypeptide binding]; other site 994484002707 inhibitor binding site; inhibition site 994484002708 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 994484002709 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 994484002710 active site 994484002711 substrate binding site [chemical binding]; other site 994484002712 metal binding site [ion binding]; metal-binding site 994484002713 triosephosphate isomerase; Provisional; Region: PRK14567 994484002714 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 994484002715 substrate binding site [chemical binding]; other site 994484002716 dimer interface [polypeptide binding]; other site 994484002717 catalytic triad [active] 994484002718 ribosome maturation protein RimP; Reviewed; Region: PRK00092 994484002719 Sm and related proteins; Region: Sm_like; cl00259 994484002720 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 994484002721 putative oligomer interface [polypeptide binding]; other site 994484002722 putative RNA binding site [nucleotide binding]; other site 994484002723 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 994484002724 NusA N-terminal domain; Region: NusA_N; pfam08529 994484002725 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 994484002726 RNA binding site [nucleotide binding]; other site 994484002727 homodimer interface [polypeptide binding]; other site 994484002728 NusA-like KH domain; Region: KH_5; pfam13184 994484002729 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 994484002730 G-X-X-G motif; other site 994484002731 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 994484002732 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 994484002733 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 994484002734 translation initiation factor IF-2; Region: IF-2; TIGR00487 994484002735 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 994484002736 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 994484002737 G1 box; other site 994484002738 putative GEF interaction site [polypeptide binding]; other site 994484002739 GTP/Mg2+ binding site [chemical binding]; other site 994484002740 Switch I region; other site 994484002741 G2 box; other site 994484002742 G3 box; other site 994484002743 Switch II region; other site 994484002744 G4 box; other site 994484002745 G5 box; other site 994484002746 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 994484002747 Translation-initiation factor 2; Region: IF-2; pfam11987 994484002748 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 994484002749 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 994484002750 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 994484002751 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 994484002752 RNA binding site [nucleotide binding]; other site 994484002753 active site 994484002754 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 994484002755 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 994484002756 16S/18S rRNA binding site [nucleotide binding]; other site 994484002757 S13e-L30e interaction site [polypeptide binding]; other site 994484002758 25S rRNA binding site [nucleotide binding]; other site 994484002759 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 994484002760 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 994484002761 RNase E interface [polypeptide binding]; other site 994484002762 trimer interface [polypeptide binding]; other site 994484002763 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 994484002764 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 994484002765 RNase E interface [polypeptide binding]; other site 994484002766 trimer interface [polypeptide binding]; other site 994484002767 active site 994484002768 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 994484002769 putative nucleic acid binding region [nucleotide binding]; other site 994484002770 G-X-X-G motif; other site 994484002771 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 994484002772 RNA binding site [nucleotide binding]; other site 994484002773 domain interface; other site 994484002774 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 994484002775 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 994484002776 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 994484002777 dimerization interface [polypeptide binding]; other site 994484002778 active site 994484002779 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 994484002780 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 994484002781 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 994484002782 amidase catalytic site [active] 994484002783 Zn binding residues [ion binding]; other site 994484002784 substrate binding site [chemical binding]; other site 994484002785 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 994484002786 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 994484002787 dimerization interface [polypeptide binding]; other site 994484002788 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484002789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484002790 dimer interface [polypeptide binding]; other site 994484002791 putative CheW interface [polypeptide binding]; other site 994484002792 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 994484002793 active site 994484002794 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 994484002795 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484002796 DNA binding site [nucleotide binding] 994484002797 domain linker motif; other site 994484002798 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 994484002799 dimerization interface [polypeptide binding]; other site 994484002800 ligand binding site [chemical binding]; other site 994484002801 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 994484002802 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 994484002803 active site 994484002804 phosphorylation site [posttranslational modification] 994484002805 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 994484002806 active site 994484002807 phosphorylation site [posttranslational modification] 994484002808 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 994484002809 regulatory protein interface [polypeptide binding]; other site 994484002810 active site 994484002811 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 994484002812 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484002813 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 994484002814 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 994484002815 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 994484002816 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 994484002817 putative substrate binding site [chemical binding]; other site 994484002818 putative ATP binding site [chemical binding]; other site 994484002819 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 994484002820 active site 994484002821 P-loop; other site 994484002822 phosphorylation site [posttranslational modification] 994484002823 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 994484002824 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 994484002825 active site 994484002826 P-loop; other site 994484002827 phosphorylation site [posttranslational modification] 994484002828 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 994484002829 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 994484002830 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484002831 putative active site [active] 994484002832 putative metal binding site [ion binding]; other site 994484002833 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484002834 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484002835 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484002836 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 994484002837 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 994484002838 Flavodoxin; Region: Flavodoxin_1; pfam00258 994484002839 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 994484002840 FAD binding pocket [chemical binding]; other site 994484002841 FAD binding motif [chemical binding]; other site 994484002842 catalytic residues [active] 994484002843 NAD binding pocket [chemical binding]; other site 994484002844 phosphate binding motif [ion binding]; other site 994484002845 beta-alpha-beta structure motif; other site 994484002846 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 994484002847 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 994484002848 dimer interface [polypeptide binding]; other site 994484002849 active site 994484002850 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484002851 catalytic residues [active] 994484002852 substrate binding site [chemical binding]; other site 994484002853 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 994484002854 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 994484002855 Walker A/P-loop; other site 994484002856 ATP binding site [chemical binding]; other site 994484002857 Q-loop/lid; other site 994484002858 ABC transporter signature motif; other site 994484002859 Walker B; other site 994484002860 D-loop; other site 994484002861 H-loop/switch region; other site 994484002862 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 994484002863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484002864 dimer interface [polypeptide binding]; other site 994484002865 conserved gate region; other site 994484002866 ABC-ATPase subunit interface; other site 994484002867 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 994484002868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484002869 ABC-ATPase subunit interface; other site 994484002870 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 994484002871 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 994484002872 G1 box; other site 994484002873 putative GEF interaction site [polypeptide binding]; other site 994484002874 GTP/Mg2+ binding site [chemical binding]; other site 994484002875 Switch I region; other site 994484002876 G2 box; other site 994484002877 G3 box; other site 994484002878 Switch II region; other site 994484002879 G4 box; other site 994484002880 G5 box; other site 994484002881 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 994484002882 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484002883 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484002884 Walker A/P-loop; other site 994484002885 ATP binding site [chemical binding]; other site 994484002886 Q-loop/lid; other site 994484002887 ABC transporter signature motif; other site 994484002888 Walker B; other site 994484002889 D-loop; other site 994484002890 H-loop/switch region; other site 994484002891 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 994484002892 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 994484002893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484002894 Walker A/P-loop; other site 994484002895 ATP binding site [chemical binding]; other site 994484002896 Q-loop/lid; other site 994484002897 ABC transporter signature motif; other site 994484002898 Walker B; other site 994484002899 D-loop; other site 994484002900 H-loop/switch region; other site 994484002901 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484002902 dipeptide transporter; Provisional; Region: PRK10913 994484002903 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484002904 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484002905 dimer interface [polypeptide binding]; other site 994484002906 conserved gate region; other site 994484002907 putative PBP binding loops; other site 994484002908 ABC-ATPase subunit interface; other site 994484002909 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484002910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484002911 dimer interface [polypeptide binding]; other site 994484002912 conserved gate region; other site 994484002913 putative PBP binding loops; other site 994484002914 ABC-ATPase subunit interface; other site 994484002915 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484002916 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484002917 peptide binding site [polypeptide binding]; other site 994484002918 outer membrane porin, OprD family; Region: OprD; pfam03573 994484002919 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484002920 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484002921 peptide binding site [polypeptide binding]; other site 994484002922 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484002923 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484002924 peptide binding site [polypeptide binding]; other site 994484002925 Protein of unknown function (DUF541); Region: SIMPL; cl01077 994484002926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484002927 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 994484002928 ATP binding site [chemical binding]; other site 994484002929 G-X-G motif; other site 994484002930 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 994484002931 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 994484002932 active site 994484002933 phosphorylation site [posttranslational modification] 994484002934 intermolecular recognition site; other site 994484002935 dimerization interface [polypeptide binding]; other site 994484002936 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484002937 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 994484002938 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 994484002939 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 994484002940 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484002941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484002942 DNA-binding site [nucleotide binding]; DNA binding site 994484002943 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484002944 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 994484002945 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484002946 putative active site [active] 994484002947 catalytic residue [active] 994484002948 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 994484002949 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484002950 NAD(P) binding site [chemical binding]; other site 994484002951 catalytic residues [active] 994484002952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484002953 D-galactonate transporter; Region: 2A0114; TIGR00893 994484002954 putative substrate translocation pore; other site 994484002955 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484002956 galactarate dehydratase; Region: galactar-dH20; TIGR03248 994484002957 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 994484002958 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 994484002959 Predicted permeases [General function prediction only]; Region: COG0679 994484002960 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484002961 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 994484002962 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 994484002963 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 994484002964 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 994484002965 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 994484002966 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 994484002967 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 994484002968 GatB domain; Region: GatB_Yqey; smart00845 994484002969 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 994484002970 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 994484002971 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 994484002972 rod shape-determining protein MreB; Provisional; Region: PRK13927 994484002973 MreB and similar proteins; Region: MreB_like; cd10225 994484002974 nucleotide binding site [chemical binding]; other site 994484002975 Mg binding site [ion binding]; other site 994484002976 putative protofilament interaction site [polypeptide binding]; other site 994484002977 RodZ interaction site [polypeptide binding]; other site 994484002978 rod shape-determining protein MreC; Provisional; Region: PRK13922 994484002979 rod shape-determining protein MreC; Region: MreC; pfam04085 994484002980 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 994484002981 Maf-like protein; Region: Maf; pfam02545 994484002982 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 994484002983 active site 994484002984 dimer interface [polypeptide binding]; other site 994484002985 ribonuclease G; Provisional; Region: PRK11712 994484002986 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 994484002987 homodimer interface [polypeptide binding]; other site 994484002988 oligonucleotide binding site [chemical binding]; other site 994484002989 TIGR02099 family protein; Region: TIGR02099 994484002990 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 994484002991 nitrilase; Region: PLN02798 994484002992 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 994484002993 putative active site [active] 994484002994 catalytic triad [active] 994484002995 dimer interface [polypeptide binding]; other site 994484002996 protease TldD; Provisional; Region: tldD; PRK10735 994484002997 hypothetical protein; Provisional; Region: PRK05255 994484002998 peptidase PmbA; Provisional; Region: PRK11040 994484002999 fumarate hydratase; Reviewed; Region: fumC; PRK00485 994484003000 Class II fumarases; Region: Fumarase_classII; cd01362 994484003001 active site 994484003002 tetramer interface [polypeptide binding]; other site 994484003003 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 994484003004 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 994484003005 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 994484003006 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 994484003007 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 994484003008 dimerization domain swap beta strand [polypeptide binding]; other site 994484003009 regulatory protein interface [polypeptide binding]; other site 994484003010 active site 994484003011 regulatory phosphorylation site [posttranslational modification]; other site 994484003012 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 994484003013 AAA domain; Region: AAA_18; pfam13238 994484003014 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 994484003015 active site 994484003016 phosphorylation site [posttranslational modification] 994484003017 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 994484003018 30S subunit binding site; other site 994484003019 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 994484003020 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 994484003021 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 994484003022 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 994484003023 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 994484003024 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 994484003025 Walker A/P-loop; other site 994484003026 ATP binding site [chemical binding]; other site 994484003027 Q-loop/lid; other site 994484003028 ABC transporter signature motif; other site 994484003029 Walker B; other site 994484003030 D-loop; other site 994484003031 H-loop/switch region; other site 994484003032 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 994484003033 OstA-like protein; Region: OstA; pfam03968 994484003034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 994484003035 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 994484003036 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 994484003037 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 994484003038 active site 994484003039 motif I; other site 994484003040 motif II; other site 994484003041 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 994484003042 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 994484003043 putative active site [active] 994484003044 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 994484003045 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 994484003046 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 994484003047 Walker A/P-loop; other site 994484003048 ATP binding site [chemical binding]; other site 994484003049 Q-loop/lid; other site 994484003050 ABC transporter signature motif; other site 994484003051 Walker B; other site 994484003052 D-loop; other site 994484003053 H-loop/switch region; other site 994484003054 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 994484003055 Permease; Region: Permease; cl00510 994484003056 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 994484003057 mce related protein; Region: MCE; pfam02470 994484003058 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 994484003059 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 994484003060 anti sigma factor interaction site; other site 994484003061 regulatory phosphorylation site [posttranslational modification]; other site 994484003062 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 994484003063 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 994484003064 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 994484003065 hinge; other site 994484003066 active site 994484003067 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 994484003068 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 994484003069 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 994484003070 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 994484003071 NAD binding site [chemical binding]; other site 994484003072 dimerization interface [polypeptide binding]; other site 994484003073 product binding site; other site 994484003074 substrate binding site [chemical binding]; other site 994484003075 zinc binding site [ion binding]; other site 994484003076 catalytic residues [active] 994484003077 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 994484003078 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 994484003079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003080 homodimer interface [polypeptide binding]; other site 994484003081 catalytic residue [active] 994484003082 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484003083 dimerization interface [polypeptide binding]; other site 994484003084 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484003085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484003086 dimer interface [polypeptide binding]; other site 994484003087 putative CheW interface [polypeptide binding]; other site 994484003088 Peptidase family M48; Region: Peptidase_M48; pfam01435 994484003089 Predicted membrane protein [Function unknown]; Region: COG2119 994484003090 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 994484003091 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 994484003092 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 994484003093 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 994484003094 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 994484003095 S-adenosylmethionine binding site [chemical binding]; other site 994484003096 glycerate dehydrogenase; Provisional; Region: PRK06487 994484003097 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 994484003098 putative ligand binding site [chemical binding]; other site 994484003099 putative NAD binding site [chemical binding]; other site 994484003100 catalytic site [active] 994484003101 LysE type translocator; Region: LysE; cl00565 994484003102 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 994484003103 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484003104 acyl-activating enzyme (AAE) consensus motif; other site 994484003105 AMP binding site [chemical binding]; other site 994484003106 active site 994484003107 CoA binding site [chemical binding]; other site 994484003108 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484003109 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484003110 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 994484003111 AAA ATPase domain; Region: AAA_16; pfam13191 994484003112 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484003113 DNA binding residues [nucleotide binding] 994484003114 dimerization interface [polypeptide binding]; other site 994484003115 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 994484003116 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 994484003117 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 994484003118 DNA binding site [nucleotide binding] 994484003119 active site 994484003120 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484003121 metal binding site [ion binding]; metal-binding site 994484003122 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484003123 putative active site [active] 994484003124 putative metal binding site [ion binding]; other site 994484003125 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 994484003126 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 994484003127 DctM-like transporters; Region: DctM; pfam06808 994484003128 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 994484003129 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 994484003130 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 994484003131 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 994484003132 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 994484003133 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 994484003134 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 994484003135 putative active site pocket [active] 994484003136 metal binding site [ion binding]; metal-binding site 994484003137 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484003138 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 994484003139 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484003140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484003141 dimer interface [polypeptide binding]; other site 994484003142 conserved gate region; other site 994484003143 putative PBP binding loops; other site 994484003144 ABC-ATPase subunit interface; other site 994484003145 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484003146 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484003147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484003148 dimer interface [polypeptide binding]; other site 994484003149 conserved gate region; other site 994484003150 ABC-ATPase subunit interface; other site 994484003151 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 994484003152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484003153 Walker A/P-loop; other site 994484003154 ATP binding site [chemical binding]; other site 994484003155 Q-loop/lid; other site 994484003156 ABC transporter signature motif; other site 994484003157 Walker B; other site 994484003158 D-loop; other site 994484003159 H-loop/switch region; other site 994484003160 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484003161 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 994484003162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484003163 Walker A/P-loop; other site 994484003164 ATP binding site [chemical binding]; other site 994484003165 Q-loop/lid; other site 994484003166 ABC transporter signature motif; other site 994484003167 Walker B; other site 994484003168 D-loop; other site 994484003169 H-loop/switch region; other site 994484003170 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 994484003171 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484003172 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484003173 DNA-binding site [nucleotide binding]; DNA binding site 994484003174 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484003175 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484003176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484003177 DNA-binding site [nucleotide binding]; DNA binding site 994484003178 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484003179 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 994484003180 pentamer interface [polypeptide binding]; other site 994484003181 dodecaamer interface [polypeptide binding]; other site 994484003182 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 994484003183 dimer interface [polypeptide binding]; other site 994484003184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484003185 metal binding site [ion binding]; metal-binding site 994484003186 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 994484003187 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 994484003188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484003189 Coenzyme A binding pocket [chemical binding]; other site 994484003190 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 994484003191 Uncharacterized conserved protein [Function unknown]; Region: COG3189 994484003192 Response regulator receiver domain; Region: Response_reg; pfam00072 994484003193 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 994484003194 active site 994484003195 phosphorylation site [posttranslational modification] 994484003196 intermolecular recognition site; other site 994484003197 dimerization interface [polypeptide binding]; other site 994484003198 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484003199 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484003200 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 994484003201 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 994484003202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484003203 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484003204 dimer interface [polypeptide binding]; other site 994484003205 phosphorylation site [posttranslational modification] 994484003206 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 994484003207 ATP binding site [chemical binding]; other site 994484003208 Mg2+ binding site [ion binding]; other site 994484003209 G-X-G motif; other site 994484003210 Response regulator receiver domain; Region: Response_reg; pfam00072 994484003211 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 994484003212 active site 994484003213 phosphorylation site [posttranslational modification] 994484003214 intermolecular recognition site; other site 994484003215 dimerization interface [polypeptide binding]; other site 994484003216 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 994484003217 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 994484003218 N-terminal plug; other site 994484003219 ligand-binding site [chemical binding]; other site 994484003220 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 994484003221 PAS domain; Region: PAS_9; pfam13426 994484003222 putative active site [active] 994484003223 heme pocket [chemical binding]; other site 994484003224 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484003225 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484003226 metal binding site [ion binding]; metal-binding site 994484003227 active site 994484003228 I-site; other site 994484003229 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 994484003230 putative active site [active] 994484003231 putative metal binding site [ion binding]; other site 994484003232 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484003233 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 994484003234 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 994484003235 Domain of unknown function (DUF927); Region: DUF927; cl12098 994484003236 Domain of unknown function (DUF927); Region: DUF927; cl12098 994484003237 Low molecular weight phosphatase family; Region: LMWPc; cl00105 994484003238 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 994484003239 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 994484003240 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 994484003241 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 994484003242 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 994484003243 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 994484003244 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 994484003245 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 994484003246 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 994484003247 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 994484003248 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 994484003249 Protein export membrane protein; Region: SecD_SecF; pfam02355 994484003250 hypothetical protein; Provisional; Region: PRK11280 994484003251 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 994484003252 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 994484003253 active site 994484003254 dimerization interface [polypeptide binding]; other site 994484003255 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 994484003256 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 994484003257 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 994484003258 serine O-acetyltransferase; Region: cysE; TIGR01172 994484003259 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 994484003260 trimer interface [polypeptide binding]; other site 994484003261 active site 994484003262 substrate binding site [chemical binding]; other site 994484003263 CoA binding site [chemical binding]; other site 994484003264 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 994484003265 Rrf2 family protein; Region: rrf2_super; TIGR00738 994484003266 cysteine desulfurase; Provisional; Region: PRK14012 994484003267 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 994484003268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484003269 catalytic residue [active] 994484003270 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 994484003271 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 994484003272 trimerization site [polypeptide binding]; other site 994484003273 active site 994484003274 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 994484003275 co-chaperone HscB; Provisional; Region: hscB; PRK00294 994484003276 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 994484003277 HSP70 interaction site [polypeptide binding]; other site 994484003278 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 994484003279 chaperone protein HscA; Provisional; Region: hscA; PRK05183 994484003280 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 994484003281 nucleotide binding site [chemical binding]; other site 994484003282 putative NEF/HSP70 interaction site [polypeptide binding]; other site 994484003283 SBD interface [polypeptide binding]; other site 994484003284 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 994484003285 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 994484003286 catalytic loop [active] 994484003287 iron binding site [ion binding]; other site 994484003288 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 994484003289 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 994484003290 active site 994484003291 multimer interface [polypeptide binding]; other site 994484003292 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 994484003293 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 994484003294 FeS/SAM binding site; other site 994484003295 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 994484003296 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 994484003297 binding surface 994484003298 TPR motif; other site 994484003299 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 994484003300 binding surface 994484003301 TPR motif; other site 994484003302 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 994484003303 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 994484003304 non-specific DNA binding site [nucleotide binding]; other site 994484003305 salt bridge; other site 994484003306 sequence-specific DNA binding site [nucleotide binding]; other site 994484003307 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 994484003308 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 994484003309 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 994484003310 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 994484003311 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 994484003312 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 994484003313 dimer interface [polypeptide binding]; other site 994484003314 motif 1; other site 994484003315 active site 994484003316 motif 2; other site 994484003317 motif 3; other site 994484003318 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 994484003319 anticodon binding site; other site 994484003320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 994484003321 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 994484003322 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 994484003323 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 994484003324 Trp docking motif [polypeptide binding]; other site 994484003325 GTP-binding protein Der; Reviewed; Region: PRK00093 994484003326 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 994484003327 G1 box; other site 994484003328 GTP/Mg2+ binding site [chemical binding]; other site 994484003329 Switch I region; other site 994484003330 G2 box; other site 994484003331 Switch II region; other site 994484003332 G3 box; other site 994484003333 G4 box; other site 994484003334 G5 box; other site 994484003335 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 994484003336 G1 box; other site 994484003337 GTP/Mg2+ binding site [chemical binding]; other site 994484003338 Switch I region; other site 994484003339 G2 box; other site 994484003340 G3 box; other site 994484003341 Switch II region; other site 994484003342 G4 box; other site 994484003343 G5 box; other site 994484003344 methionine aminotransferase; Validated; Region: PRK09082 994484003345 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 994484003346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003347 homodimer interface [polypeptide binding]; other site 994484003348 catalytic residue [active] 994484003349 C-N hydrolase family amidase; Provisional; Region: PRK10438 994484003350 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 994484003351 putative active site [active] 994484003352 catalytic triad [active] 994484003353 dimer interface [polypeptide binding]; other site 994484003354 multimer interface [polypeptide binding]; other site 994484003355 2-isopropylmalate synthase; Validated; Region: PRK03739 994484003356 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 994484003357 active site 994484003358 catalytic residues [active] 994484003359 metal binding site [ion binding]; metal-binding site 994484003360 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 994484003361 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 994484003362 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484003363 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 994484003364 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 994484003365 generic binding surface II; other site 994484003366 generic binding surface I; other site 994484003367 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484003368 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 994484003369 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 994484003370 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 994484003371 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 994484003372 active site 994484003373 GMP synthase; Reviewed; Region: guaA; PRK00074 994484003374 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 994484003375 AMP/PPi binding site [chemical binding]; other site 994484003376 candidate oxyanion hole; other site 994484003377 catalytic triad [active] 994484003378 potential glutamine specificity residues [chemical binding]; other site 994484003379 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 994484003380 ATP Binding subdomain [chemical binding]; other site 994484003381 Ligand Binding sites [chemical binding]; other site 994484003382 Dimerization subdomain; other site 994484003383 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 994484003384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484003385 DNA-binding site [nucleotide binding]; DNA binding site 994484003386 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 994484003387 UTRA domain; Region: UTRA; pfam07702 994484003388 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 994484003389 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 994484003390 active site turn [active] 994484003391 phosphorylation site [posttranslational modification] 994484003392 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 994484003393 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 994484003394 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 994484003395 Ca binding site [ion binding]; other site 994484003396 active site 994484003397 catalytic site [active] 994484003398 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 994484003399 trimer interface; other site 994484003400 sugar binding site [chemical binding]; other site 994484003401 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 994484003402 HPr interaction site; other site 994484003403 glycerol kinase (GK) interaction site [polypeptide binding]; other site 994484003404 active site 994484003405 phosphorylation site [posttranslational modification] 994484003406 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 994484003407 dimerization domain swap beta strand [polypeptide binding]; other site 994484003408 regulatory protein interface [polypeptide binding]; other site 994484003409 active site 994484003410 regulatory phosphorylation site [posttranslational modification]; other site 994484003411 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 994484003412 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484003413 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 994484003414 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 994484003415 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 994484003416 active site turn [active] 994484003417 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 994484003418 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484003419 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484003420 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 994484003421 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484003422 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003423 active site 994484003424 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484003425 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484003426 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003427 active site 994484003428 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 994484003429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484003430 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 994484003431 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 994484003432 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 994484003433 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484003434 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 994484003435 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 994484003436 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 994484003437 putative active site [active] 994484003438 putative metal binding site [ion binding]; other site 994484003439 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 994484003440 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 994484003441 substrate binding site [chemical binding]; other site 994484003442 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484003443 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484003444 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484003445 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 994484003446 putative substrate translocation pore; other site 994484003447 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484003448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 994484003449 FCD domain; Region: FCD; pfam07729 994484003450 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484003451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 994484003452 DNA-binding site [nucleotide binding]; DNA binding site 994484003453 Predicted flavoprotein [General function prediction only]; Region: COG0431 994484003454 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484003455 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 994484003456 putative FMN binding site [chemical binding]; other site 994484003457 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484003458 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484003459 active site 994484003460 Predicted integral membrane protein [Function unknown]; Region: COG5616 994484003461 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 994484003462 TPR motif; other site 994484003463 binding surface 994484003464 TPR repeat; Region: TPR_11; pfam13414 994484003465 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 994484003466 binding surface 994484003467 TPR motif; other site 994484003468 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 994484003469 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 994484003470 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 994484003471 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 994484003472 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 994484003473 nucleoside/Zn binding site; other site 994484003474 dimer interface [polypeptide binding]; other site 994484003475 catalytic motif [active] 994484003476 Methyltransferase domain; Region: Methyltransf_31; pfam13847 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; cd02440 994484003478 S-adenosylmethionine binding site [chemical binding]; other site 994484003479 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 994484003480 S-adenosylmethionine binding site [chemical binding]; other site 994484003481 YhhN-like protein; Region: YhhN; pfam07947 994484003482 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 994484003483 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 994484003484 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484003485 Walker A motif; other site 994484003486 ATP binding site [chemical binding]; other site 994484003487 Walker B motif; other site 994484003488 arginine finger; other site 994484003489 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484003490 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484003491 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484003492 putative substrate translocation pore; other site 994484003493 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 994484003494 Domain of unknown function DUF21; Region: DUF21; pfam01595 994484003495 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 994484003496 Transporter associated domain; Region: CorC_HlyC; smart01091 994484003497 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 994484003498 signal recognition particle protein; Provisional; Region: PRK10867 994484003499 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 994484003500 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 994484003501 P loop; other site 994484003502 GTP binding site [chemical binding]; other site 994484003503 Signal peptide binding domain; Region: SRP_SPB; pfam02978 994484003504 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 994484003505 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 994484003506 RimM N-terminal domain; Region: RimM; pfam01782 994484003507 PRC-barrel domain; Region: PRC; pfam05239 994484003508 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 994484003509 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 994484003510 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 994484003511 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 994484003512 active site 994484003513 Int/Topo IB signature motif; other site 994484003514 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 994484003515 dimerization domain [polypeptide binding]; other site 994484003516 dimer interface [polypeptide binding]; other site 994484003517 catalytic residues [active] 994484003518 homoserine dehydrogenase; Provisional; Region: PRK06349 994484003519 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 994484003520 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 994484003521 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 994484003522 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 994484003523 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 994484003524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003525 catalytic residue [active] 994484003526 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484003527 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484003528 substrate binding pocket [chemical binding]; other site 994484003529 membrane-bound complex binding site; other site 994484003530 hinge residues; other site 994484003531 PAS fold; Region: PAS; pfam00989 994484003532 PAS domain; Region: PAS; smart00091 994484003533 putative active site [active] 994484003534 heme pocket [chemical binding]; other site 994484003535 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 994484003536 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 994484003537 CoA-transferase family III; Region: CoA_transf_3; pfam02515 994484003538 YaeQ protein; Region: YaeQ; pfam07152 994484003539 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 994484003540 DHH family; Region: DHH; pfam01368 994484003541 DHHA1 domain; Region: DHHA1; pfam02272 994484003542 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484003543 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 994484003544 active site 994484003545 FMN binding site [chemical binding]; other site 994484003546 substrate binding site [chemical binding]; other site 994484003547 homotetramer interface [polypeptide binding]; other site 994484003548 catalytic residue [active] 994484003549 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 994484003550 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 994484003551 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 994484003552 Predicted transcriptional regulator [Transcription]; Region: COG3905 994484003553 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 994484003554 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 994484003555 tetrameric interface [polypeptide binding]; other site 994484003556 NAD binding site [chemical binding]; other site 994484003557 catalytic residues [active] 994484003558 substrate binding site [chemical binding]; other site 994484003559 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484003560 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484003561 dimer interface [polypeptide binding]; other site 994484003562 conserved gate region; other site 994484003563 ABC-ATPase subunit interface; other site 994484003564 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484003565 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484003566 conserved gate region; other site 994484003567 dimer interface [polypeptide binding]; other site 994484003568 putative PBP binding loops; other site 994484003569 ABC-ATPase subunit interface; other site 994484003570 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484003571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484003572 Walker A/P-loop; other site 994484003573 ATP binding site [chemical binding]; other site 994484003574 Q-loop/lid; other site 994484003575 ABC transporter signature motif; other site 994484003576 Walker B; other site 994484003577 D-loop; other site 994484003578 H-loop/switch region; other site 994484003579 TOBE domain; Region: TOBE_2; pfam08402 994484003580 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 994484003581 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484003582 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 994484003583 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 994484003584 tetrameric interface [polypeptide binding]; other site 994484003585 NAD binding site [chemical binding]; other site 994484003586 catalytic residues [active] 994484003587 substrate binding site [chemical binding]; other site 994484003588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484003589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484003590 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 994484003591 putative substrate binding pocket [chemical binding]; other site 994484003592 dimerization interface [polypeptide binding]; other site 994484003593 Protein of unknown function (DUF533); Region: DUF533; pfam04391 994484003594 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 994484003595 putative metal binding site [ion binding]; other site 994484003596 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484003597 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484003598 dimerization interface [polypeptide binding]; other site 994484003599 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484003600 dimer interface [polypeptide binding]; other site 994484003601 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 994484003602 putative CheW interface [polypeptide binding]; other site 994484003603 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 994484003604 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 994484003605 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 994484003606 S-adenosylmethionine binding site [chemical binding]; other site 994484003607 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 994484003608 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 994484003609 putative binding surface; other site 994484003610 active site 994484003611 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484003612 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 994484003613 ATP binding site [chemical binding]; other site 994484003614 Mg2+ binding site [ion binding]; other site 994484003615 G-X-G motif; other site 994484003616 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 994484003617 Response regulator receiver domain; Region: Response_reg; pfam00072 994484003618 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 994484003619 active site 994484003620 phosphorylation site [posttranslational modification] 994484003621 intermolecular recognition site; other site 994484003622 dimerization interface [polypeptide binding]; other site 994484003623 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 994484003624 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 994484003625 active site 994484003626 phosphorylation site [posttranslational modification] 994484003627 intermolecular recognition site; other site 994484003628 CheB methylesterase; Region: CheB_methylest; pfam01339 994484003629 Response regulator receiver domain; Region: Response_reg; pfam00072 994484003630 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 994484003631 active site 994484003632 phosphorylation site [posttranslational modification] 994484003633 intermolecular recognition site; other site 994484003634 dimerization interface [polypeptide binding]; other site 994484003635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484003636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484003637 metal binding site [ion binding]; metal-binding site 994484003638 active site 994484003639 I-site; other site 994484003640 peptide chain release factor 2; Provisional; Region: PRK08787 994484003641 This domain is found in peptide chain release factors; Region: PCRF; smart00937 994484003642 RF-1 domain; Region: RF-1; pfam00472 994484003643 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 994484003644 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 994484003645 dimer interface [polypeptide binding]; other site 994484003646 putative anticodon binding site; other site 994484003647 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 994484003648 motif 1; other site 994484003649 active site 994484003650 motif 2; other site 994484003651 motif 3; other site 994484003652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 994484003653 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 994484003654 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484003655 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484003656 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484003657 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484003658 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484003659 ligand binding site [chemical binding]; other site 994484003660 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 994484003661 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 994484003662 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 994484003663 adenylate kinase; Reviewed; Region: adk; PRK00279 994484003664 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 994484003665 AMP-binding site [chemical binding]; other site 994484003666 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 994484003667 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 994484003668 Glycoprotease family; Region: Peptidase_M22; pfam00814 994484003669 Protein of unknown function DUF72; Region: DUF72; cl00777 994484003670 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 994484003671 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 994484003672 tetramer interface [polypeptide binding]; other site 994484003673 active site 994484003674 Mg2+/Mn2+ binding site [ion binding]; other site 994484003675 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 994484003676 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 994484003677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484003678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484003679 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 994484003680 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484003681 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484003682 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484003683 putative membrane fusion protein; Region: TIGR02828 994484003684 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 994484003685 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 994484003686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 994484003687 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 994484003688 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 994484003689 putative acyl-acceptor binding pocket; other site 994484003690 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484003691 DNA-binding site [nucleotide binding]; DNA binding site 994484003692 RNA-binding motif; other site 994484003693 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 994484003694 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 994484003695 S-adenosylmethionine binding site [chemical binding]; other site 994484003696 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 994484003697 active site 994484003698 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 994484003699 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 994484003700 metal binding site [ion binding]; metal-binding site 994484003701 dimer interface [polypeptide binding]; other site 994484003702 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 994484003703 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 994484003704 putative ATP binding site [chemical binding]; other site 994484003705 putative substrate interface [chemical binding]; other site 994484003706 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 994484003707 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 994484003708 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 994484003709 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484003710 catalytic residue [active] 994484003711 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 994484003712 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 994484003713 putative trimer interface [polypeptide binding]; other site 994484003714 putative CoA binding site [chemical binding]; other site 994484003715 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 994484003716 ArsC family; Region: ArsC; pfam03960 994484003717 putative catalytic residues [active] 994484003718 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 994484003719 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 994484003720 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 994484003721 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 994484003722 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 994484003723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484003724 homodimer interface [polypeptide binding]; other site 994484003725 catalytic residue [active] 994484003726 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 994484003727 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484003728 metal binding triad; other site 994484003729 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 994484003730 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484003731 Zn2+ binding site [ion binding]; other site 994484003732 Mg2+ binding site [ion binding]; other site 994484003733 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 994484003734 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 994484003735 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 994484003736 active site 994484003737 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 994484003738 rRNA interaction site [nucleotide binding]; other site 994484003739 S8 interaction site; other site 994484003740 putative laminin-1 binding site; other site 994484003741 elongation factor Ts; Provisional; Region: tsf; PRK09377 994484003742 UBA/TS-N domain; Region: UBA; pfam00627 994484003743 Elongation factor TS; Region: EF_TS; pfam00889 994484003744 Elongation factor TS; Region: EF_TS; pfam00889 994484003745 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 994484003746 putative nucleotide binding site [chemical binding]; other site 994484003747 uridine monophosphate binding site [chemical binding]; other site 994484003748 homohexameric interface [polypeptide binding]; other site 994484003749 ribosome recycling factor; Reviewed; Region: frr; PRK00083 994484003750 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 994484003751 hinge region; other site 994484003752 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 994484003753 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 994484003754 catalytic residue [active] 994484003755 putative FPP diphosphate binding site; other site 994484003756 putative FPP binding hydrophobic cleft; other site 994484003757 dimer interface [polypeptide binding]; other site 994484003758 putative IPP diphosphate binding site; other site 994484003759 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 994484003760 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 994484003761 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 994484003762 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 994484003763 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 994484003764 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 994484003765 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 994484003766 zinc metallopeptidase RseP; Provisional; Region: PRK10779 994484003767 active site 994484003768 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 994484003769 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 994484003770 protein binding site [polypeptide binding]; other site 994484003771 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 994484003772 putative substrate binding region [chemical binding]; other site 994484003773 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 994484003774 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484003775 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484003776 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484003777 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484003778 Surface antigen; Region: Bac_surface_Ag; pfam01103 994484003779 periplasmic chaperone; Provisional; Region: PRK10780 994484003780 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 994484003781 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 994484003782 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 994484003783 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 994484003784 trimer interface [polypeptide binding]; other site 994484003785 active site 994484003786 UDP-GlcNAc binding site [chemical binding]; other site 994484003787 lipid binding site [chemical binding]; lipid-binding site 994484003788 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 994484003789 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 994484003790 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 994484003791 active site 994484003792 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 994484003793 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 994484003794 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 994484003795 RNA/DNA hybrid binding site [nucleotide binding]; other site 994484003796 active site 994484003797 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 994484003798 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 994484003799 putative active site [active] 994484003800 putative PHP Thumb interface [polypeptide binding]; other site 994484003801 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 994484003802 generic binding surface II; other site 994484003803 generic binding surface I; other site 994484003804 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 994484003805 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 994484003806 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 994484003807 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 994484003808 Ligand Binding Site [chemical binding]; other site 994484003809 TilS substrate binding domain; Region: TilS; pfam09179 994484003810 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 994484003811 CTP synthetase; Validated; Region: pyrG; PRK05380 994484003812 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 994484003813 Catalytic site [active] 994484003814 active site 994484003815 UTP binding site [chemical binding]; other site 994484003816 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 994484003817 active site 994484003818 putative oxyanion hole; other site 994484003819 catalytic triad [active] 994484003820 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 994484003821 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 994484003822 enolase; Provisional; Region: eno; PRK00077 994484003823 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 994484003824 dimer interface [polypeptide binding]; other site 994484003825 metal binding site [ion binding]; metal-binding site 994484003826 substrate binding pocket [chemical binding]; other site 994484003827 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 994484003828 Septum formation initiator; Region: DivIC; cl17659 994484003829 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 994484003830 substrate binding site; other site 994484003831 dimer interface; other site 994484003832 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484003833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484003834 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 994484003835 putative effector binding pocket; other site 994484003836 putative dimerization interface [polypeptide binding]; other site 994484003837 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 994484003838 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 994484003839 substrate binding site [chemical binding]; other site 994484003840 catalytic Zn binding site [ion binding]; other site 994484003841 NAD binding site [chemical binding]; other site 994484003842 structural Zn binding site [ion binding]; other site 994484003843 dimer interface [polypeptide binding]; other site 994484003844 S-formylglutathione hydrolase; Region: PLN02442 994484003845 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 994484003846 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 994484003847 homotrimer interaction site [polypeptide binding]; other site 994484003848 zinc binding site [ion binding]; other site 994484003849 CDP-binding sites; other site 994484003850 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 994484003851 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 994484003852 Permutation of conserved domain; other site 994484003853 active site 994484003854 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 994484003855 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 994484003856 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 994484003857 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 994484003858 S-adenosylmethionine binding site [chemical binding]; other site 994484003859 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484003860 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 994484003861 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 994484003862 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484003863 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 994484003864 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484003865 DNA binding residues [nucleotide binding] 994484003866 Ferredoxin [Energy production and conversion]; Region: COG1146 994484003867 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 994484003868 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 994484003869 MutS domain I; Region: MutS_I; pfam01624 994484003870 MutS domain II; Region: MutS_II; pfam05188 994484003871 MutS domain III; Region: MutS_III; pfam05192 994484003872 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 994484003873 Walker A/P-loop; other site 994484003874 ATP binding site [chemical binding]; other site 994484003875 Q-loop/lid; other site 994484003876 ABC transporter signature motif; other site 994484003877 Walker B; other site 994484003878 D-loop; other site 994484003879 H-loop/switch region; other site 994484003880 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 994484003881 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 994484003882 non-specific DNA binding site [nucleotide binding]; other site 994484003883 salt bridge; other site 994484003884 sequence-specific DNA binding site [nucleotide binding]; other site 994484003885 Predicted transcriptional regulator [Transcription]; Region: COG2932 994484003886 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 994484003887 Catalytic site [active] 994484003888 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 994484003889 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 994484003890 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 994484003891 Phage tail tube protein; Region: Tail_tube; pfam10618 994484003892 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 994484003893 Phage-related protein [Function unknown]; Region: COG5412 994484003894 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 994484003895 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 994484003896 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 994484003897 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484003898 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 994484003899 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 994484003900 Phage protein GP46; Region: GP46; pfam07409 994484003901 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 994484003902 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 994484003903 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 994484003904 Predicted chitinase [General function prediction only]; Region: COG3179 994484003905 catalytic residue [active] 994484003906 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 994484003907 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 994484003908 recombinase A; Provisional; Region: recA; PRK09354 994484003909 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 994484003910 hexamer interface [polypeptide binding]; other site 994484003911 Walker A motif; other site 994484003912 ATP binding site [chemical binding]; other site 994484003913 Walker B motif; other site 994484003914 recombination regulator RecX; Reviewed; Region: recX; PRK00117 994484003915 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 994484003916 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 994484003917 Uncharacterized conserved protein [Function unknown]; Region: COG3148 994484003918 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484003919 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 994484003920 active site 994484003921 phosphorylation site [posttranslational modification] 994484003922 intermolecular recognition site; other site 994484003923 dimerization interface [polypeptide binding]; other site 994484003924 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484003925 DNA binding residues [nucleotide binding] 994484003926 dimerization interface [polypeptide binding]; other site 994484003927 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 994484003928 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 994484003929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484003930 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 994484003931 putative dimerization interface [polypeptide binding]; other site 994484003932 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484003933 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 994484003934 FAD binding pocket [chemical binding]; other site 994484003935 FAD binding motif [chemical binding]; other site 994484003936 phosphate binding motif [ion binding]; other site 994484003937 beta-alpha-beta structure motif; other site 994484003938 NAD binding pocket [chemical binding]; other site 994484003939 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 994484003940 homodimer interaction site [polypeptide binding]; other site 994484003941 cofactor binding site; other site 994484003942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 994484003943 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 994484003944 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 994484003945 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 994484003946 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 994484003947 RNA binding surface [nucleotide binding]; other site 994484003948 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 994484003949 active site 994484003950 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484003951 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484003952 Coenzyme A binding pocket [chemical binding]; other site 994484003953 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 994484003954 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 994484003955 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 994484003956 FeS/SAM binding site; other site 994484003957 TRAM domain; Region: TRAM; cl01282 994484003958 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 994484003959 potassium uptake protein; Region: kup; TIGR00794 994484003960 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 994484003961 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 994484003962 Predicted integral membrane protein [Function unknown]; Region: COG0392 994484003963 Uncharacterized conserved protein [Function unknown]; Region: COG2898 994484003964 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 994484003965 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 994484003966 active site 994484003967 DNA polymerase IV; Validated; Region: PRK02406 994484003968 DNA binding site [nucleotide binding] 994484003969 prolyl-tRNA synthetase; Provisional; Region: PRK09194 994484003970 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 994484003971 dimer interface [polypeptide binding]; other site 994484003972 motif 1; other site 994484003973 active site 994484003974 motif 2; other site 994484003975 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 994484003976 putative deacylase active site [active] 994484003977 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 994484003978 active site 994484003979 motif 3; other site 994484003980 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 994484003981 anticodon binding site; other site 994484003982 muropeptide transporter; Validated; Region: ampG; cl17669 994484003983 muropeptide transporter; Validated; Region: ampG; cl17669 994484003984 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 994484003985 active site 994484003986 DNA binding site [nucleotide binding] 994484003987 Protein of unknown function, DUF481; Region: DUF481; pfam04338 994484003988 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484003989 DNA-binding site [nucleotide binding]; DNA binding site 994484003990 RNA-binding motif; other site 994484003991 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 994484003992 trimer interface [polypeptide binding]; other site 994484003993 active site 994484003994 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 994484003995 putative active site [active] 994484003996 putative metal binding site [ion binding]; other site 994484003997 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 994484003998 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 994484003999 ATP binding site [chemical binding]; other site 994484004000 putative Mg++ binding site [ion binding]; other site 994484004001 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 994484004002 nucleotide binding region [chemical binding]; other site 994484004003 ATP-binding site [chemical binding]; other site 994484004004 DEAD/H associated; Region: DEAD_assoc; pfam08494 994484004005 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484004006 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484004007 Walker A/P-loop; other site 994484004008 ATP binding site [chemical binding]; other site 994484004009 Q-loop/lid; other site 994484004010 ABC transporter signature motif; other site 994484004011 Walker B; other site 994484004012 D-loop; other site 994484004013 H-loop/switch region; other site 994484004014 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 994484004015 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 994484004016 active site 994484004017 Zn binding site [ion binding]; other site 994484004018 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484004019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484004020 dimer interface [polypeptide binding]; other site 994484004021 conserved gate region; other site 994484004022 putative PBP binding loops; other site 994484004023 ABC-ATPase subunit interface; other site 994484004024 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484004025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484004026 dimer interface [polypeptide binding]; other site 994484004027 conserved gate region; other site 994484004028 putative PBP binding loops; other site 994484004029 ABC-ATPase subunit interface; other site 994484004030 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484004031 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484004032 substrate binding pocket [chemical binding]; other site 994484004033 membrane-bound complex binding site; other site 994484004034 hinge residues; other site 994484004035 ATP-dependent DNA ligase; Validated; Region: PRK09247 994484004036 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 994484004037 active site 994484004038 DNA binding site [nucleotide binding] 994484004039 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 994484004040 DNA binding site [nucleotide binding] 994484004041 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 994484004042 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484004043 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 994484004044 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 994484004045 active site 994484004046 Isochorismatase family; Region: Isochorismatase; pfam00857 994484004047 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 994484004048 catalytic triad [active] 994484004049 conserved cis-peptide bond; other site 994484004050 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 994484004051 hypothetical protein; Provisional; Region: PRK00183 994484004052 SEC-C motif; Region: SEC-C; pfam02810 994484004053 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484004054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484004055 ligand binding site [chemical binding]; other site 994484004056 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484004057 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484004058 ligand binding site [chemical binding]; other site 994484004059 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 994484004060 Predicted integral membrane protein [Function unknown]; Region: COG5615 994484004061 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 994484004062 DEAD/DEAH box helicase; Region: DEAD; pfam00270 994484004063 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 994484004064 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484004065 Beta-lactamase; Region: Beta-lactamase; pfam00144 994484004066 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484004067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484004068 ligand binding site [chemical binding]; other site 994484004069 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 994484004070 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 994484004071 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 994484004072 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 994484004073 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 994484004074 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 994484004075 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 994484004076 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484004077 catalytic residue [active] 994484004078 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 994484004079 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484004080 Predicted membrane protein [Function unknown]; Region: COG3650 994484004081 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 994484004082 putative NAD(P) binding site [chemical binding]; other site 994484004083 homodimer interface [polypeptide binding]; other site 994484004084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004086 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 994484004087 putative effector binding pocket; other site 994484004088 dimerization interface [polypeptide binding]; other site 994484004089 Predicted membrane protein [Function unknown]; Region: COG2259 994484004090 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 994484004091 hypothetical protein; Provisional; Region: PRK05409 994484004092 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 994484004093 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484004094 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 994484004095 Walker A/P-loop; other site 994484004096 ATP binding site [chemical binding]; other site 994484004097 Q-loop/lid; other site 994484004098 ABC transporter signature motif; other site 994484004099 Walker B; other site 994484004100 D-loop; other site 994484004101 H-loop/switch region; other site 994484004102 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 994484004103 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 994484004104 Walker A/P-loop; other site 994484004105 ATP binding site [chemical binding]; other site 994484004106 Q-loop/lid; other site 994484004107 ABC transporter signature motif; other site 994484004108 Walker B; other site 994484004109 D-loop; other site 994484004110 H-loop/switch region; other site 994484004111 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 994484004112 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 994484004113 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 994484004114 TM-ABC transporter signature motif; other site 994484004115 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484004116 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 994484004117 TM-ABC transporter signature motif; other site 994484004118 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 994484004119 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 994484004120 dimerization interface [polypeptide binding]; other site 994484004121 ligand binding site [chemical binding]; other site 994484004122 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 994484004123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004124 putative substrate translocation pore; other site 994484004125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484004126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004127 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484004128 putative substrate translocation pore; other site 994484004129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004130 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 994484004131 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 994484004132 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484004133 Cupin domain; Region: Cupin_2; cl17218 994484004134 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484004135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484004136 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 994484004137 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 994484004138 putative substrate binding site [chemical binding]; other site 994484004139 nucleotide binding site [chemical binding]; other site 994484004140 nucleotide binding site [chemical binding]; other site 994484004141 homodimer interface [polypeptide binding]; other site 994484004142 ornithine carbamoyltransferase; Validated; Region: PRK02102 994484004143 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 994484004144 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 994484004145 arginine deiminase; Provisional; Region: PRK01388 994484004146 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 994484004147 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 994484004148 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 994484004149 CoA-transferase family III; Region: CoA_transf_3; pfam02515 994484004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 994484004151 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 994484004152 heme binding pocket [chemical binding]; other site 994484004153 heme ligand [chemical binding]; other site 994484004154 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484004155 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 994484004156 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 994484004157 N-terminal plug; other site 994484004158 ligand-binding site [chemical binding]; other site 994484004159 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484004160 FecR protein; Region: FecR; pfam04773 994484004161 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 994484004162 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004163 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484004164 DNA binding residues [nucleotide binding] 994484004165 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 994484004166 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 994484004167 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484004168 phosphogluconate dehydratase; Validated; Region: PRK09054 994484004169 6-phosphogluconate dehydratase; Region: edd; TIGR01196 994484004170 glucokinase; Provisional; Region: glk; PRK00292 994484004171 glucokinase, proteobacterial type; Region: glk; TIGR00749 994484004172 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484004173 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 994484004174 active site 994484004175 phosphorylation site [posttranslational modification] 994484004176 intermolecular recognition site; other site 994484004177 dimerization interface [polypeptide binding]; other site 994484004178 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484004179 DNA binding site [nucleotide binding] 994484004180 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 994484004181 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 994484004182 ATP binding site [chemical binding]; other site 994484004183 Mg2+ binding site [ion binding]; other site 994484004184 G-X-G motif; other site 994484004185 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 994484004186 putative active cleft [active] 994484004187 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484004188 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 994484004189 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484004190 dimer interface [polypeptide binding]; other site 994484004191 conserved gate region; other site 994484004192 putative PBP binding loops; other site 994484004193 ABC-ATPase subunit interface; other site 994484004194 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484004195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484004196 dimer interface [polypeptide binding]; other site 994484004197 conserved gate region; other site 994484004198 putative PBP binding loops; other site 994484004199 ABC-ATPase subunit interface; other site 994484004200 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484004201 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 994484004202 Walker A/P-loop; other site 994484004203 ATP binding site [chemical binding]; other site 994484004204 Q-loop/lid; other site 994484004205 ABC transporter signature motif; other site 994484004206 Walker B; other site 994484004207 D-loop; other site 994484004208 H-loop/switch region; other site 994484004209 TOBE domain; Region: TOBE; pfam03459 994484004210 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 994484004211 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 994484004212 active site 994484004213 phosphate binding residues; other site 994484004214 catalytic residues [active] 994484004215 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 994484004216 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 994484004217 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 994484004218 putative active site [active] 994484004219 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 994484004220 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 994484004221 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 994484004222 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 994484004223 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 994484004224 putative active site [active] 994484004225 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 994484004226 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 994484004227 active site 994484004228 intersubunit interface [polypeptide binding]; other site 994484004229 catalytic residue [active] 994484004230 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 994484004231 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 994484004232 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484004233 catalytic residue [active] 994484004234 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 994484004235 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 994484004236 Fusaric acid resistance protein family; Region: FUSC; pfam04632 994484004237 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 994484004238 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 994484004239 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 994484004240 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484004241 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484004242 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 994484004243 dimer interaction site [polypeptide binding]; other site 994484004244 substrate-binding tunnel; other site 994484004245 active site 994484004246 catalytic site [active] 994484004247 substrate binding site [chemical binding]; other site 994484004248 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 994484004249 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484004250 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484004251 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 994484004252 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 994484004253 acyl-activating enzyme (AAE) consensus motif; other site 994484004254 putative AMP binding site [chemical binding]; other site 994484004255 putative active site [active] 994484004256 putative CoA binding site [chemical binding]; other site 994484004257 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 994484004258 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 994484004259 acyl-activating enzyme (AAE) consensus motif; other site 994484004260 putative active site [active] 994484004261 putative AMP binding site [chemical binding]; other site 994484004262 putative CoA binding site [chemical binding]; other site 994484004263 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 994484004264 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 994484004265 active site 994484004266 catalytic residues [active] 994484004267 metal binding site [ion binding]; metal-binding site 994484004268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484004269 Coenzyme A binding pocket [chemical binding]; other site 994484004270 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484004271 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484004272 DNA binding site [nucleotide binding] 994484004273 domain linker motif; other site 994484004274 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 994484004275 putative ligand binding site [chemical binding]; other site 994484004276 putative dimerization interface [polypeptide binding]; other site 994484004277 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 994484004278 AAA domain; Region: AAA_33; pfam13671 994484004279 ATP-binding site [chemical binding]; other site 994484004280 Gluconate-6-phosphate binding site [chemical binding]; other site 994484004281 fructuronate transporter; Provisional; Region: PRK10034; cl15264 994484004282 GntP family permease; Region: GntP_permease; pfam02447 994484004283 aminotransferase; Validated; Region: PRK08175 994484004284 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 994484004285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004286 homodimer interface [polypeptide binding]; other site 994484004287 catalytic residue [active] 994484004288 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484004289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 994484004290 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 994484004291 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484004292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484004293 Coenzyme A binding pocket [chemical binding]; other site 994484004294 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 994484004295 SnoaL-like domain; Region: SnoaL_3; pfam13474 994484004296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 994484004297 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 994484004298 putative hydrophobic ligand binding site [chemical binding]; other site 994484004299 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 994484004300 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004301 Imelysin; Region: Peptidase_M75; cl09159 994484004302 biofilm formation regulator HmsP; Provisional; Region: PRK11829 994484004303 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004304 metal binding site [ion binding]; metal-binding site 994484004305 active site 994484004306 I-site; other site 994484004307 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 994484004308 superoxide dismutase; Provisional; Region: PRK10543 994484004309 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 994484004310 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 994484004311 Lysine efflux permease [General function prediction only]; Region: COG1279 994484004312 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 994484004313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004314 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 994484004315 dimerization interface [polypeptide binding]; other site 994484004316 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484004317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484004318 NAD(P) binding site [chemical binding]; other site 994484004319 active site 994484004320 Cache domain; Region: Cache_2; cl07034 994484004321 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 994484004322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484004323 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484004324 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484004325 ATP-dependent helicase HepA; Validated; Region: PRK04914 994484004326 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 994484004327 ATP binding site [chemical binding]; other site 994484004328 putative Mg++ binding site [ion binding]; other site 994484004329 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 994484004330 nucleotide binding region [chemical binding]; other site 994484004331 ATP-binding site [chemical binding]; other site 994484004332 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 994484004333 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 994484004334 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 994484004335 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 994484004336 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484004337 benzoate transport; Region: 2A0115; TIGR00895 994484004338 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004339 putative substrate translocation pore; other site 994484004340 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004341 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 994484004342 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 994484004343 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 994484004344 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 994484004345 dimer interface [polypeptide binding]; other site 994484004346 active site 994484004347 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 994484004348 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 994484004349 heterodimer interface [polypeptide binding]; other site 994484004350 multimer interface [polypeptide binding]; other site 994484004351 active site 994484004352 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 994484004353 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 994484004354 heterodimer interface [polypeptide binding]; other site 994484004355 active site 994484004356 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 994484004357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004358 putative substrate translocation pore; other site 994484004359 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 994484004360 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 994484004361 tetramer interface [polypeptide binding]; other site 994484004362 active site 994484004363 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484004364 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 994484004365 outer membrane porin, OprD family; Region: OprD; pfam03573 994484004366 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484004367 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484004368 Protein export membrane protein; Region: SecD_SecF; cl14618 994484004369 Protein export membrane protein; Region: SecD_SecF; cl14618 994484004370 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484004371 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484004372 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484004373 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 994484004374 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484004375 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 994484004376 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484004377 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 994484004378 FMN binding site [chemical binding]; other site 994484004379 active site 994484004380 substrate binding site [chemical binding]; other site 994484004381 catalytic residue [active] 994484004382 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484004383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004384 putative substrate translocation pore; other site 994484004385 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 994484004386 dimerization interface [polypeptide binding]; other site 994484004387 putative DNA binding site [nucleotide binding]; other site 994484004388 putative Zn2+ binding site [ion binding]; other site 994484004389 Protein of unknown function, DUF479; Region: DUF479; cl01203 994484004390 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484004391 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484004392 putative acyl-acceptor binding pocket; other site 994484004393 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 994484004394 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484004395 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484004396 Beta-lactamase; Region: Beta-lactamase; pfam00144 994484004397 YceI-like domain; Region: YceI; pfam04264 994484004398 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 994484004399 PLD-like domain; Region: PLDc_2; pfam13091 994484004400 putative active site [active] 994484004401 catalytic site [active] 994484004402 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 994484004403 PLD-like domain; Region: PLDc_2; pfam13091 994484004404 putative active site [active] 994484004405 catalytic site [active] 994484004406 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 994484004407 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 994484004408 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 994484004409 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 994484004410 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 994484004411 Repair protein; Region: Repair_PSII; pfam04536 994484004412 Repair protein; Region: Repair_PSII; cl01535 994484004413 Methyltransferase domain; Region: Methyltransf_31; pfam13847 994484004414 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 994484004415 S-adenosylmethionine binding site [chemical binding]; other site 994484004416 intracellular protease, PfpI family; Region: PfpI; TIGR01382 994484004417 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 994484004418 conserved cys residue [active] 994484004419 Uncharacterized conserved protein [Function unknown]; Region: COG3422 994484004420 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 994484004421 putative alcohol dehydrogenase; Provisional; Region: PRK09860 994484004422 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 994484004423 dimer interface [polypeptide binding]; other site 994484004424 active site 994484004425 metal binding site [ion binding]; metal-binding site 994484004426 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004427 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484004428 putative substrate translocation pore; other site 994484004429 hypothetical protein; Provisional; Region: PRK07505 994484004430 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 994484004431 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484004432 catalytic residue [active] 994484004433 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 994484004434 dimer interface [polypeptide binding]; other site 994484004435 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484004436 Mn binding site [ion binding]; other site 994484004437 K binding site [ion binding]; other site 994484004438 PAS fold; Region: PAS; pfam00989 994484004439 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 994484004440 putative active site [active] 994484004441 heme pocket [chemical binding]; other site 994484004442 GAF domain; Region: GAF_3; pfam13492 994484004443 GAF domain; Region: GAF_2; pfam13185 994484004444 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484004445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004446 metal binding site [ion binding]; metal-binding site 994484004447 active site 994484004448 I-site; other site 994484004449 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 994484004450 Low affinity iron permease; Region: Iron_permease; pfam04120 994484004451 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 994484004452 YcfA-like protein; Region: YcfA; pfam07927 994484004453 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484004454 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484004455 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 994484004456 putative DNA binding site [nucleotide binding]; other site 994484004457 putative Zn2+ binding site [ion binding]; other site 994484004458 AsnC family; Region: AsnC_trans_reg; pfam01037 994484004459 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 994484004460 Zeta toxin; Region: Zeta_toxin; pfam06414 994484004461 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484004462 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 994484004463 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 994484004464 active site 994484004465 uracil binding [chemical binding]; other site 994484004466 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 994484004467 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484004468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484004469 metal binding site [ion binding]; metal-binding site 994484004470 active site 994484004471 I-site; other site 994484004472 allophanate hydrolase; Provisional; Region: PRK08186 994484004473 Amidase; Region: Amidase; cl11426 994484004474 urea carboxylase; Region: urea_carbox; TIGR02712 994484004475 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484004476 ATP-grasp domain; Region: ATP-grasp_4; cl17255 994484004477 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 994484004478 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 994484004479 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 994484004480 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 994484004481 carboxyltransferase (CT) interaction site; other site 994484004482 biotinylation site [posttranslational modification]; other site 994484004483 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 994484004484 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 994484004485 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 994484004486 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 994484004487 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484004488 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 994484004489 Walker A/P-loop; other site 994484004490 ATP binding site [chemical binding]; other site 994484004491 Q-loop/lid; other site 994484004492 ABC transporter signature motif; other site 994484004493 Walker B; other site 994484004494 D-loop; other site 994484004495 H-loop/switch region; other site 994484004496 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 994484004497 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 994484004498 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484004499 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 994484004500 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 994484004501 substrate binding site [chemical binding]; other site 994484004502 oxyanion hole (OAH) forming residues; other site 994484004503 trimer interface [polypeptide binding]; other site 994484004504 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 994484004505 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 994484004506 ligand binding site [chemical binding]; other site 994484004507 active site 994484004508 UGI interface [polypeptide binding]; other site 994484004509 catalytic site [active] 994484004510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484004511 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484004512 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484004513 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484004514 Putative ammonia monooxygenase; Region: AmoA; pfam05145 994484004515 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484004516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 994484004517 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 994484004518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 994484004519 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 994484004520 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 994484004521 active site 994484004522 phosphorylation site [posttranslational modification] 994484004523 intermolecular recognition site; other site 994484004524 dimerization interface [polypeptide binding]; other site 994484004525 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484004526 DNA binding site [nucleotide binding] 994484004527 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 994484004528 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484004529 HAMP domain; Region: HAMP; pfam00672 994484004530 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484004531 dimer interface [polypeptide binding]; other site 994484004532 phosphorylation site [posttranslational modification] 994484004533 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 994484004534 ATP binding site [chemical binding]; other site 994484004535 Mg2+ binding site [ion binding]; other site 994484004536 G-X-G motif; other site 994484004537 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484004538 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 994484004539 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 994484004540 Uncharacterized conserved protein [Function unknown]; Region: COG2938 994484004541 L-aspartate oxidase; Provisional; Region: PRK09077 994484004542 L-aspartate oxidase; Provisional; Region: PRK06175 994484004543 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 994484004544 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 994484004545 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004546 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484004547 DNA binding residues [nucleotide binding] 994484004548 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 994484004549 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 994484004550 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 994484004551 anti-sigma E factor; Provisional; Region: rseB; PRK09455 994484004552 MucB/RseB family; Region: MucB_RseB; pfam03888 994484004553 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 994484004554 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 994484004555 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 994484004556 protein binding site [polypeptide binding]; other site 994484004557 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 994484004558 protein binding site [polypeptide binding]; other site 994484004559 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 994484004560 Peptidase family M48; Region: Peptidase_M48; cl12018 994484004561 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 994484004562 binding surface 994484004563 TPR motif; other site 994484004564 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 994484004565 CPxP motif; other site 994484004566 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 994484004567 Domain of unknown function DUF20; Region: UPF0118; pfam01594 994484004568 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 994484004569 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 994484004570 catalytic triad [active] 994484004571 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 994484004572 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 994484004573 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 994484004574 dihydrodipicolinate synthase; Region: dapA; TIGR00674 994484004575 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 994484004576 dimer interface [polypeptide binding]; other site 994484004577 active site 994484004578 catalytic residue [active] 994484004579 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 994484004580 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 994484004581 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 994484004582 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 994484004583 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 994484004584 ATP binding site [chemical binding]; other site 994484004585 active site 994484004586 substrate binding site [chemical binding]; other site 994484004587 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484004588 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484004589 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484004590 dimerization interface [polypeptide binding]; other site 994484004591 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484004592 dimer interface [polypeptide binding]; other site 994484004593 putative CheW interface [polypeptide binding]; other site 994484004594 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 994484004595 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 994484004596 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484004597 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484004598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484004599 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 994484004600 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 994484004601 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 994484004602 Ligand binding site; other site 994484004603 Putative Catalytic site; other site 994484004604 DXD motif; other site 994484004605 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484004606 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 994484004607 GtrA-like protein; Region: GtrA; pfam04138 994484004608 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 994484004609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004611 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 994484004612 putative substrate binding pocket [chemical binding]; other site 994484004613 putative dimerization interface [polypeptide binding]; other site 994484004614 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 994484004615 putative substrate binding pocket [chemical binding]; other site 994484004616 trimer interface [polypeptide binding]; other site 994484004617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004619 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 994484004620 substrate binding pocket [chemical binding]; other site 994484004621 dimerization interface [polypeptide binding]; other site 994484004622 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484004623 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484004624 putative metal dependent hydrolase; Provisional; Region: PRK11598 994484004625 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 994484004626 Sulfatase; Region: Sulfatase; pfam00884 994484004627 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484004628 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 994484004629 S-adenosylmethionine binding site [chemical binding]; other site 994484004630 ribonuclease D; Region: rnd; TIGR01388 994484004631 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 994484004632 catalytic site [active] 994484004633 putative active site [active] 994484004634 putative substrate binding site [chemical binding]; other site 994484004635 HRDC domain; Region: HRDC; pfam00570 994484004636 YcgL domain; Region: YcgL; pfam05166 994484004637 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 994484004638 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 994484004639 NAD binding site [chemical binding]; other site 994484004640 ligand binding site [chemical binding]; other site 994484004641 catalytic site [active] 994484004642 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 994484004643 putative FMN binding site [chemical binding]; other site 994484004644 hypothetical protein; Provisional; Region: PRK05170 994484004645 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 994484004646 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 994484004647 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 994484004648 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484004649 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484004650 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484004651 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 994484004652 motif II; other site 994484004653 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 994484004654 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 994484004655 active site 994484004656 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 994484004657 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484004658 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 994484004659 ligand binding site [chemical binding]; other site 994484004660 flexible hinge region; other site 994484004661 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 994484004662 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484004663 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 994484004664 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 994484004665 putative active site [active] 994484004666 putative dimer interface [polypeptide binding]; other site 994484004667 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 994484004668 benzoate transport; Region: 2A0115; TIGR00895 994484004669 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484004670 putative substrate translocation pore; other site 994484004671 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 994484004672 putative active site [active] 994484004673 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 994484004674 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 994484004675 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 994484004676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 994484004677 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484004678 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484004679 Walker A motif; other site 994484004680 ATP binding site [chemical binding]; other site 994484004681 Walker B motif; other site 994484004682 arginine finger; other site 994484004683 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 994484004684 non-specific DNA binding site [nucleotide binding]; other site 994484004685 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 994484004686 salt bridge; other site 994484004687 sequence-specific DNA binding site [nucleotide binding]; other site 994484004688 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484004689 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 994484004690 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 994484004691 dimer interface [polypeptide binding]; other site 994484004692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004693 catalytic residue [active] 994484004694 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 994484004695 EamA-like transporter family; Region: EamA; pfam00892 994484004696 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484004697 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 994484004698 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 994484004699 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 994484004700 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 994484004701 ATP binding site [chemical binding]; other site 994484004702 putative Mg++ binding site [ion binding]; other site 994484004703 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 994484004704 nucleotide binding region [chemical binding]; other site 994484004705 ATP-binding site [chemical binding]; other site 994484004706 Helicase associated domain (HA2); Region: HA2; pfam04408 994484004707 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 994484004708 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 994484004709 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 994484004710 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 994484004711 dimer interface [polypeptide binding]; other site 994484004712 active site 994484004713 CoA binding pocket [chemical binding]; other site 994484004714 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 994484004715 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484004716 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484004717 DNA binding residues [nucleotide binding] 994484004718 Putative zinc-finger; Region: zf-HC2; pfam13490 994484004719 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 994484004720 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 994484004721 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 994484004722 Protein of unknown function, DUF482; Region: DUF482; pfam04339 994484004723 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 994484004724 amphipathic channel; other site 994484004725 Asn-Pro-Ala signature motifs; other site 994484004726 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 994484004727 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484004728 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 994484004729 Walker A/P-loop; other site 994484004730 ATP binding site [chemical binding]; other site 994484004731 Q-loop/lid; other site 994484004732 ABC transporter signature motif; other site 994484004733 Walker B; other site 994484004734 D-loop; other site 994484004735 H-loop/switch region; other site 994484004736 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 994484004737 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 994484004738 substrate binding site [chemical binding]; other site 994484004739 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484004740 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484004741 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 994484004742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004744 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 994484004745 dimerization interface [polypeptide binding]; other site 994484004746 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 994484004747 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484004748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484004749 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484004750 dimer interface [polypeptide binding]; other site 994484004751 phosphorylation site [posttranslational modification] 994484004752 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 994484004753 ATP binding site [chemical binding]; other site 994484004754 Mg2+ binding site [ion binding]; other site 994484004755 G-X-G motif; other site 994484004756 Response regulator receiver domain; Region: Response_reg; pfam00072 994484004757 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 994484004758 active site 994484004759 phosphorylation site [posttranslational modification] 994484004760 intermolecular recognition site; other site 994484004761 dimerization interface [polypeptide binding]; other site 994484004762 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484004763 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 994484004764 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484004765 helicase 45; Provisional; Region: PTZ00424 994484004766 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 994484004767 ATP binding site [chemical binding]; other site 994484004768 Mg++ binding site [ion binding]; other site 994484004769 motif III; other site 994484004770 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 994484004771 nucleotide binding region [chemical binding]; other site 994484004772 ATP-binding site [chemical binding]; other site 994484004773 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 994484004774 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 994484004775 non-specific DNA binding site [nucleotide binding]; other site 994484004776 salt bridge; other site 994484004777 sequence-specific DNA binding site [nucleotide binding]; other site 994484004778 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 994484004779 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 994484004780 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 994484004781 S1 domain; Region: S1_2; pfam13509 994484004782 S1 domain; Region: S1_2; pfam13509 994484004783 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 994484004784 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484004785 Na binding site [ion binding]; other site 994484004786 putative substrate binding site [chemical binding]; other site 994484004787 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 994484004788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004790 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 994484004791 putative dimerization interface [polypeptide binding]; other site 994484004792 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 994484004793 Na binding site [ion binding]; other site 994484004794 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 994484004795 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484004796 Na binding site [ion binding]; other site 994484004797 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 994484004798 SnoaL-like domain; Region: SnoaL_3; pfam13474 994484004799 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 994484004800 agmatinase; Region: agmatinase; TIGR01230 994484004801 oligomer interface [polypeptide binding]; other site 994484004802 putative active site [active] 994484004803 Mn binding site [ion binding]; other site 994484004804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484004805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484004806 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 994484004807 dimerization interface [polypeptide binding]; other site 994484004808 potential frameshift: common BLAST hit: gi|77457686|ref|YP_347191.1| DTW 994484004809 DTW domain; Region: DTW; cl01221 994484004810 DTW domain; Region: DTW; cl01221 994484004811 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484004812 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484004813 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 994484004814 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 994484004815 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484004816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484004817 Walker A/P-loop; other site 994484004818 ATP binding site [chemical binding]; other site 994484004819 Q-loop/lid; other site 994484004820 ABC transporter signature motif; other site 994484004821 Walker B; other site 994484004822 D-loop; other site 994484004823 H-loop/switch region; other site 994484004824 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484004825 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004826 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004827 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004828 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 994484004829 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 994484004830 metal ion-dependent adhesion site (MIDAS); other site 994484004831 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484004832 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 994484004833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 994484004834 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 994484004835 yecA family protein; Region: ygfB_yecA; TIGR02292 994484004836 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 994484004837 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 994484004838 ATP binding site [chemical binding]; other site 994484004839 putative Mg++ binding site [ion binding]; other site 994484004840 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 994484004841 nucleotide binding region [chemical binding]; other site 994484004842 ATP-binding site [chemical binding]; other site 994484004843 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 994484004844 HRDC domain; Region: HRDC; pfam00570 994484004845 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484004846 MarR family; Region: MarR_2; pfam12802 994484004847 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484004848 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 994484004849 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 994484004850 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 994484004851 active site 994484004852 nucleophile elbow; other site 994484004853 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484004854 Surface antigen; Region: Bac_surface_Ag; pfam01103 994484004855 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 994484004856 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484004857 EamA-like transporter family; Region: EamA; pfam00892 994484004858 Cupin domain; Region: Cupin_2; pfam07883 994484004859 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484004860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484004861 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484004862 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 994484004863 putative active site [active] 994484004864 putative metal binding site [ion binding]; other site 994484004865 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 994484004866 Protein of unknown function (DUF962); Region: DUF962; cl01879 994484004867 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484004868 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484004869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484004870 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 994484004871 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 994484004872 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 994484004873 putative FMN binding site [chemical binding]; other site 994484004874 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 994484004875 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 994484004876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004877 homodimer interface [polypeptide binding]; other site 994484004878 catalytic residue [active] 994484004879 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 994484004880 aromatic arch; other site 994484004881 DCoH dimer interaction site [polypeptide binding]; other site 994484004882 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 994484004883 DCoH tetramer interaction site [polypeptide binding]; other site 994484004884 substrate binding site [chemical binding]; other site 994484004885 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 994484004886 cofactor binding site; other site 994484004887 metal binding site [ion binding]; metal-binding site 994484004888 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 994484004889 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 994484004890 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 994484004891 putative active site [active] 994484004892 heme pocket [chemical binding]; other site 994484004893 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484004894 Walker A motif; other site 994484004895 ATP binding site [chemical binding]; other site 994484004896 Walker B motif; other site 994484004897 arginine finger; other site 994484004898 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; cl17393 994484004899 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 994484004900 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 994484004901 inhibitor-cofactor binding pocket; inhibition site 994484004902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484004903 catalytic residue [active] 994484004904 WbqC-like protein family; Region: WbqC; pfam08889 994484004905 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 994484004906 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484004907 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 994484004908 Coenzyme A binding pocket [chemical binding]; other site 994484004909 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 994484004910 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484004911 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 994484004912 S-adenosylmethionine binding site [chemical binding]; other site 994484004913 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 994484004914 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484004915 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484004916 Probable Catalytic site; other site 994484004917 metal-binding site 994484004918 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 994484004919 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 994484004920 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 994484004921 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484004922 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 994484004923 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 994484004924 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 994484004925 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 994484004926 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 994484004927 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 994484004928 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 994484004929 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 994484004930 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 994484004931 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 994484004932 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 994484004933 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 994484004934 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 994484004935 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 994484004936 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 994484004937 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 994484004938 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 994484004939 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 994484004940 active site 994484004941 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 994484004942 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 994484004943 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484004944 Probable Catalytic site; other site 994484004945 metal-binding site 994484004946 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484004947 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 994484004948 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 994484004949 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 994484004950 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 994484004951 active site 994484004952 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 994484004953 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 994484004954 dimer interface [polypeptide binding]; other site 994484004955 active site 994484004956 CoA binding pocket [chemical binding]; other site 994484004957 flagellin; Provisional; Region: PRK12802 994484004958 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 994484004959 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 994484004960 FlaG protein; Region: FlaG; pfam03646 994484004961 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 994484004962 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 994484004963 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 994484004964 flagellar protein FliS; Validated; Region: fliS; PRK05685 994484004965 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484004966 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 994484004967 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484004968 Walker A motif; other site 994484004969 ATP binding site [chemical binding]; other site 994484004970 Walker B motif; other site 994484004971 arginine finger; other site 994484004972 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484004973 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484004974 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484004975 dimer interface [polypeptide binding]; other site 994484004976 phosphorylation site [posttranslational modification] 994484004977 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 994484004978 ATP binding site [chemical binding]; other site 994484004979 Mg2+ binding site [ion binding]; other site 994484004980 G-X-G motif; other site 994484004981 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484004982 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 994484004983 active site 994484004984 phosphorylation site [posttranslational modification] 994484004985 intermolecular recognition site; other site 994484004986 dimerization interface [polypeptide binding]; other site 994484004987 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484004988 Walker A motif; other site 994484004989 ATP binding site [chemical binding]; other site 994484004990 Walker B motif; other site 994484004991 arginine finger; other site 994484004992 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 994484004993 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 994484004994 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 994484004995 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 994484004996 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 994484004997 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 994484004998 MgtE intracellular N domain; Region: MgtE_N; cl15244 994484004999 FliG C-terminal domain; Region: FliG_C; pfam01706 994484005000 flagellar assembly protein H; Validated; Region: fliH; PRK05687 994484005001 Flagellar assembly protein FliH; Region: FliH; pfam02108 994484005002 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 994484005003 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 994484005004 Walker A motif/ATP binding site; other site 994484005005 Walker B motif; other site 994484005006 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 994484005007 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 994484005008 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 994484005009 anti sigma factor interaction site; other site 994484005010 regulatory phosphorylation site [posttranslational modification]; other site 994484005011 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484005012 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 994484005013 active site 994484005014 phosphorylation site [posttranslational modification] 994484005015 intermolecular recognition site; other site 994484005016 dimerization interface [polypeptide binding]; other site 994484005017 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 994484005018 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 994484005019 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 994484005020 ATP binding site [chemical binding]; other site 994484005021 Mg2+ binding site [ion binding]; other site 994484005022 G-X-G motif; other site 994484005023 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 994484005024 putative binding surface; other site 994484005025 active site 994484005026 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 994484005027 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 994484005028 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 994484005029 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 994484005030 flagellar motor switch protein; Validated; Region: fliN; PRK05698 994484005031 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484005032 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 994484005033 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 994484005034 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 994484005035 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 994484005036 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 994484005037 CcmE; Region: CcmE; cl00994 994484005038 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 994484005039 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 994484005040 FHIPEP family; Region: FHIPEP; pfam00771 994484005041 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 994484005042 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484005043 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 994484005044 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484005045 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 994484005046 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 994484005047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005048 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 994484005049 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484005050 DNA binding residues [nucleotide binding] 994484005051 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 994484005052 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 994484005053 active site 994484005054 phosphorylation site [posttranslational modification] 994484005055 intermolecular recognition site; other site 994484005056 dimerization interface [polypeptide binding]; other site 994484005057 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 994484005058 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 994484005059 putative binding surface; other site 994484005060 active site 994484005061 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484005062 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484005063 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 994484005064 ATP binding site [chemical binding]; other site 994484005065 Mg2+ binding site [ion binding]; other site 994484005066 G-X-G motif; other site 994484005067 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 994484005068 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 994484005069 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 994484005070 active site 994484005071 phosphorylation site [posttranslational modification] 994484005072 intermolecular recognition site; other site 994484005073 dimerization interface [polypeptide binding]; other site 994484005074 CheB methylesterase; Region: CheB_methylest; pfam01339 994484005075 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 994484005076 flagellar motor protein; Reviewed; Region: motC; PRK09109 994484005077 flagellar motor protein MotD; Reviewed; Region: PRK09038 994484005078 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 994484005079 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484005080 ligand binding site [chemical binding]; other site 994484005081 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484005082 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 994484005083 P-loop; other site 994484005084 Magnesium ion binding site [ion binding]; other site 994484005085 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 994484005086 Magnesium ion binding site [ion binding]; other site 994484005087 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 994484005088 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 994484005089 putative CheA interaction surface; other site 994484005090 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 994484005091 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 994484005092 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 994484005093 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 994484005094 AAA domain; Region: AAA_23; pfam13476 994484005095 Walker A/P-loop; other site 994484005096 ATP binding site [chemical binding]; other site 994484005097 ABC transporter; Region: ABC_tran; pfam00005 994484005098 Q-loop/lid; other site 994484005099 ABC transporter signature motif; other site 994484005100 Walker B; other site 994484005101 D-loop; other site 994484005102 H-loop/switch region; other site 994484005103 CcmB protein; Region: CcmB; pfam03379 994484005104 heme exporter protein CcmC; Region: ccmC; TIGR01191 994484005105 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 994484005106 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 994484005107 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 994484005108 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 994484005109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 994484005110 catalytic residues [active] 994484005111 central insert; other site 994484005112 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 994484005113 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 994484005114 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 994484005115 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 994484005116 binding surface 994484005117 TPR motif; other site 994484005118 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 994484005119 Sulfatase; Region: Sulfatase; pfam00884 994484005120 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 994484005121 short chain dehydrogenase; Provisional; Region: PRK05650 994484005122 classical (c) SDRs; Region: SDR_c; cd05233 994484005123 NAD(P) binding site [chemical binding]; other site 994484005124 active site 994484005125 hypothetical protein; Provisional; Region: PRK02237 994484005126 Global regulator protein family; Region: CsrA; pfam02599 994484005127 hypothetical protein; Provisional; Region: PRK00304 994484005128 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 994484005129 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 994484005130 putative oligomer interface [polypeptide binding]; other site 994484005131 putative active site [active] 994484005132 metal binding site [ion binding]; metal-binding site 994484005133 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 994484005134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484005135 Coenzyme A binding pocket [chemical binding]; other site 994484005136 ATP-grasp domain; Region: ATP-grasp_4; cl17255 994484005137 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 994484005138 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 994484005139 active site 994484005140 dimer interface [polypeptide binding]; other site 994484005141 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 994484005142 Ligand Binding Site [chemical binding]; other site 994484005143 Molecular Tunnel; other site 994484005144 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 994484005145 Uncharacterized conserved protein [Function unknown]; Region: COG4121 994484005146 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 994484005147 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 994484005148 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 994484005149 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 994484005150 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 994484005151 dimer interface [polypeptide binding]; other site 994484005152 active site 994484005153 EamA-like transporter family; Region: EamA; cl17759 994484005154 fumarate hydratase; Provisional; Region: PRK12425 994484005155 Class II fumarases; Region: Fumarase_classII; cd01362 994484005156 active site 994484005157 tetramer interface [polypeptide binding]; other site 994484005158 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 994484005159 BolA-like protein; Region: BolA; pfam01722 994484005160 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 994484005161 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 994484005162 active site residue [active] 994484005163 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 994484005164 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 994484005165 catalytic residues [active] 994484005166 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 994484005167 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484005168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484005169 Walker A/P-loop; other site 994484005170 ATP binding site [chemical binding]; other site 994484005171 Q-loop/lid; other site 994484005172 ABC transporter signature motif; other site 994484005173 Walker B; other site 994484005174 D-loop; other site 994484005175 H-loop/switch region; other site 994484005176 PAS domain S-box; Region: sensory_box; TIGR00229 994484005177 PAS domain; Region: PAS; smart00091 994484005178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484005179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005180 metal binding site [ion binding]; metal-binding site 994484005181 active site 994484005182 I-site; other site 994484005183 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 994484005184 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 994484005185 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484005186 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005187 metal binding site [ion binding]; metal-binding site 994484005188 active site 994484005189 I-site; other site 994484005190 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 994484005191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005192 NAD(P) binding site [chemical binding]; other site 994484005193 active site 994484005194 phosphoglycolate phosphatase; Provisional; Region: PRK13222 994484005195 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 994484005196 motif II; other site 994484005197 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 994484005198 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 994484005199 S-adenosylmethionine binding site [chemical binding]; other site 994484005200 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 994484005201 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 994484005202 active site 994484005203 putative substrate binding pocket [chemical binding]; other site 994484005204 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 994484005205 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 994484005206 DNA gyrase subunit A; Validated; Region: PRK05560 994484005207 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 994484005208 CAP-like domain; other site 994484005209 active site 994484005210 primary dimer interface [polypeptide binding]; other site 994484005211 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484005212 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484005213 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484005214 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484005215 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484005216 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 994484005217 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 994484005218 homodimer interface [polypeptide binding]; other site 994484005219 substrate-cofactor binding pocket; other site 994484005220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005221 catalytic residue [active] 994484005222 Chorismate mutase type II; Region: CM_2; cl00693 994484005223 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 994484005224 Prephenate dehydratase; Region: PDT; pfam00800 994484005225 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 994484005226 putative L-Phe binding site [chemical binding]; other site 994484005227 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 994484005228 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 994484005229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005230 homodimer interface [polypeptide binding]; other site 994484005231 catalytic residue [active] 994484005232 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 994484005233 prephenate dehydrogenase; Validated; Region: PRK08507 994484005234 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 994484005235 hinge; other site 994484005236 active site 994484005237 cytidylate kinase; Provisional; Region: cmk; PRK00023 994484005238 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 994484005239 CMP-binding site; other site 994484005240 The sites determining sugar specificity; other site 994484005241 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 994484005242 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 994484005243 RNA binding site [nucleotide binding]; other site 994484005244 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 994484005245 RNA binding site [nucleotide binding]; other site 994484005246 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 994484005247 RNA binding site [nucleotide binding]; other site 994484005248 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 994484005249 RNA binding site [nucleotide binding]; other site 994484005250 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 994484005251 RNA binding site [nucleotide binding]; other site 994484005252 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 994484005253 RNA binding site [nucleotide binding]; other site 994484005254 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 994484005255 IHF dimer interface [polypeptide binding]; other site 994484005256 IHF - DNA interface [nucleotide binding]; other site 994484005257 Chain length determinant protein; Region: Wzz; pfam02706 994484005258 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 994484005259 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 994484005260 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484005261 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 994484005262 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484005263 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484005264 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484005265 putative trimer interface [polypeptide binding]; other site 994484005266 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 994484005267 putative CoA binding site [chemical binding]; other site 994484005268 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 994484005269 putative trimer interface [polypeptide binding]; other site 994484005270 putative active site [active] 994484005271 putative substrate binding site [chemical binding]; other site 994484005272 putative CoA binding site [chemical binding]; other site 994484005273 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 994484005274 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 994484005275 inhibitor-cofactor binding pocket; inhibition site 994484005276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005277 catalytic residue [active] 994484005278 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 994484005279 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 994484005280 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 994484005281 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 994484005282 active site 994484005283 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 994484005284 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 994484005285 Ligand Binding Site [chemical binding]; other site 994484005286 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 994484005287 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 994484005288 putative active site [active] 994484005289 oxyanion strand; other site 994484005290 catalytic triad [active] 994484005291 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 994484005292 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 994484005293 substrate binding site [chemical binding]; other site 994484005294 glutamase interaction surface [polypeptide binding]; other site 994484005295 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 994484005296 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 994484005297 NAD(P) binding site [chemical binding]; other site 994484005298 homodimer interface [polypeptide binding]; other site 994484005299 substrate binding site [chemical binding]; other site 994484005300 active site 994484005301 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 994484005302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484005303 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 994484005304 NAD(P) binding site [chemical binding]; other site 994484005305 active site 994484005306 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 994484005307 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 994484005308 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 994484005309 active site 994484005310 homodimer interface [polypeptide binding]; other site 994484005311 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 994484005312 putative glycosyl transferase; Provisional; Region: PRK10307 994484005313 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484005314 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 994484005315 putative NAD(P) binding site [chemical binding]; other site 994484005316 active site 994484005317 putative substrate binding site [chemical binding]; other site 994484005318 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 994484005319 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 994484005320 Mg++ binding site [ion binding]; other site 994484005321 putative catalytic motif [active] 994484005322 putative substrate binding site [chemical binding]; other site 994484005323 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 994484005324 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 994484005325 NAD(P) binding site [chemical binding]; other site 994484005326 homodimer interface [polypeptide binding]; other site 994484005327 substrate binding site [chemical binding]; other site 994484005328 active site 994484005329 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 994484005330 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 994484005331 inhibitor-cofactor binding pocket; inhibition site 994484005332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005333 catalytic residue [active] 994484005334 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 994484005335 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 994484005336 NAD(P) binding site [chemical binding]; other site 994484005337 homodimer interface [polypeptide binding]; other site 994484005338 substrate binding site [chemical binding]; other site 994484005339 active site 994484005340 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 994484005341 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 994484005342 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 994484005343 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 994484005344 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 994484005345 putative trimer interface [polypeptide binding]; other site 994484005346 putative CoA binding site [chemical binding]; other site 994484005347 Methyltransferase domain; Region: Methyltransf_12; pfam08242 994484005348 S-adenosylmethionine binding site [chemical binding]; other site 994484005349 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 994484005350 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 994484005351 Ligand binding site; other site 994484005352 Putative Catalytic site; other site 994484005353 DXD motif; other site 994484005354 WbqC-like protein family; Region: WbqC; pfam08889 994484005355 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484005356 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 994484005357 ethanolamine permease; Region: 2A0305; TIGR00908 994484005358 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 994484005359 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 994484005360 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484005361 Soluble P-type ATPase [General function prediction only]; Region: COG4087 994484005362 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 994484005363 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 994484005364 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 994484005365 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 994484005366 Ligand Binding Site [chemical binding]; other site 994484005367 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 994484005368 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484005369 dimer interface [polypeptide binding]; other site 994484005370 phosphorylation site [posttranslational modification] 994484005371 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 994484005372 ATP binding site [chemical binding]; other site 994484005373 Mg2+ binding site [ion binding]; other site 994484005374 G-X-G motif; other site 994484005375 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 994484005376 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 994484005377 active site 994484005378 phosphorylation site [posttranslational modification] 994484005379 intermolecular recognition site; other site 994484005380 dimerization interface [polypeptide binding]; other site 994484005381 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484005382 DNA binding site [nucleotide binding] 994484005383 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 994484005384 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 994484005385 active site 994484005386 nucleophile elbow; other site 994484005387 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 994484005388 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 994484005389 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 994484005390 active site 994484005391 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 994484005392 active site 2 [active] 994484005393 active site 1 [active] 994484005394 Terminase small subunit; Region: Terminase_2; cl01513 994484005395 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484005396 dimerization interface [polypeptide binding]; other site 994484005397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484005398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484005399 dimer interface [polypeptide binding]; other site 994484005400 putative CheW interface [polypeptide binding]; other site 994484005401 potential frameshift: common BLAST hit: gi|77460242|ref|YP_349749.1| Sec-independent protein translocase TatD 994484005402 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 994484005403 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 994484005404 active site 994484005405 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 994484005406 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484005407 substrate binding pocket [chemical binding]; other site 994484005408 membrane-bound complex binding site; other site 994484005409 hinge residues; other site 994484005410 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484005411 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484005412 catalytic residue [active] 994484005413 Predicted membrane protein [Function unknown]; Region: COG2259 994484005414 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 994484005415 Reovirus P9-like family; Region: Reo_P9; pfam06043 994484005416 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 994484005417 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 994484005418 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 994484005419 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 994484005420 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 994484005421 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 994484005422 Walker A/P-loop; other site 994484005423 ATP binding site [chemical binding]; other site 994484005424 Q-loop/lid; other site 994484005425 ABC transporter signature motif; other site 994484005426 Walker B; other site 994484005427 D-loop; other site 994484005428 H-loop/switch region; other site 994484005429 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 994484005430 active site 994484005431 catalytic triad [active] 994484005432 oxyanion hole [active] 994484005433 switch loop; other site 994484005434 L,D-transpeptidase; Provisional; Region: PRK10260 994484005435 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 994484005436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484005437 Coenzyme A binding pocket [chemical binding]; other site 994484005438 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 994484005439 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 994484005440 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 994484005441 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 994484005442 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 994484005443 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 994484005444 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 994484005445 Ligand Binding Site [chemical binding]; other site 994484005446 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 994484005447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484005448 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 994484005449 substrate binding site [chemical binding]; other site 994484005450 dimerization interface [polypeptide binding]; other site 994484005451 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 994484005452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 994484005453 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 994484005454 elongation factor P; Validated; Region: PRK00529 994484005455 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 994484005456 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 994484005457 RNA binding site [nucleotide binding]; other site 994484005458 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 994484005459 RNA binding site [nucleotide binding]; other site 994484005460 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 994484005461 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 994484005462 substrate binding pocket [chemical binding]; other site 994484005463 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484005464 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 994484005465 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484005466 MarR family; Region: MarR; pfam01047 994484005467 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484005468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484005469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484005470 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 994484005471 dimerization interface [polypeptide binding]; other site 994484005472 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 994484005473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 994484005474 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 994484005475 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 994484005476 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 994484005477 helicase 45; Provisional; Region: PTZ00424 994484005478 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 994484005479 ATP binding site [chemical binding]; other site 994484005480 Mg++ binding site [ion binding]; other site 994484005481 motif III; other site 994484005482 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 994484005483 nucleotide binding region [chemical binding]; other site 994484005484 ATP-binding site [chemical binding]; other site 994484005485 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 994484005486 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 994484005487 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 994484005488 putative active site [active] 994484005489 metal binding site [ion binding]; metal-binding site 994484005490 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 994484005491 heat shock protein HtpX; Provisional; Region: PRK05457 994484005492 aminotransferase AlaT; Validated; Region: PRK09265 994484005493 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 994484005494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005495 homodimer interface [polypeptide binding]; other site 994484005496 catalytic residue [active] 994484005497 methionine sulfoxide reductase B; Provisional; Region: PRK00222 994484005498 SelR domain; Region: SelR; pfam01641 994484005499 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 994484005500 catalytic residues [active] 994484005501 dimer interface [polypeptide binding]; other site 994484005502 MarR family; Region: MarR_2; cl17246 994484005503 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484005504 dimer interface [polypeptide binding]; other site 994484005505 phosphorylation site [posttranslational modification] 994484005506 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 994484005507 ATP binding site [chemical binding]; other site 994484005508 Mg2+ binding site [ion binding]; other site 994484005509 G-X-G motif; other site 994484005510 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484005511 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 994484005512 active site 994484005513 phosphorylation site [posttranslational modification] 994484005514 intermolecular recognition site; other site 994484005515 dimerization interface [polypeptide binding]; other site 994484005516 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 994484005517 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484005518 Walker A motif; other site 994484005519 ATP binding site [chemical binding]; other site 994484005520 Walker B motif; other site 994484005521 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 994484005522 GAF domain; Region: GAF_2; pfam13185 994484005523 GAF domain; Region: GAF_3; pfam13492 994484005524 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484005525 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 994484005526 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484005527 substrate binding pocket [chemical binding]; other site 994484005528 membrane-bound complex binding site; other site 994484005529 hinge residues; other site 994484005530 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484005531 substrate binding pocket [chemical binding]; other site 994484005532 membrane-bound complex binding site; other site 994484005533 hinge residues; other site 994484005534 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 994484005535 putative active site [active] 994484005536 heme pocket [chemical binding]; other site 994484005537 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484005538 dimer interface [polypeptide binding]; other site 994484005539 phosphorylation site [posttranslational modification] 994484005540 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 994484005541 ATP binding site [chemical binding]; other site 994484005542 Mg2+ binding site [ion binding]; other site 994484005543 G-X-G motif; other site 994484005544 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 994484005545 active site 994484005546 phosphorylation site [posttranslational modification] 994484005547 intermolecular recognition site; other site 994484005548 dimerization interface [polypeptide binding]; other site 994484005549 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 994484005550 putative binding surface; other site 994484005551 active site 994484005552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484005553 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 994484005554 active site 994484005555 phosphorylation site [posttranslational modification] 994484005556 intermolecular recognition site; other site 994484005557 dimerization interface [polypeptide binding]; other site 994484005558 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484005559 DNA binding residues [nucleotide binding] 994484005560 dimerization interface [polypeptide binding]; other site 994484005561 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 994484005562 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484005563 Zn2+ binding site [ion binding]; other site 994484005564 Mg2+ binding site [ion binding]; other site 994484005565 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 994484005566 Predicted membrane protein [Function unknown]; Region: COG5393 994484005567 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 994484005568 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 994484005569 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484005570 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 994484005571 TrkA-N domain; Region: TrkA_N; pfam02254 994484005572 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 994484005573 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 994484005574 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 994484005575 probable active site [active] 994484005576 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 994484005577 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 994484005578 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 994484005579 GTP binding site; other site 994484005580 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 994484005581 MPT binding site; other site 994484005582 trimer interface [polypeptide binding]; other site 994484005583 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 994484005584 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 994484005585 dimer interface [polypeptide binding]; other site 994484005586 putative functional site; other site 994484005587 putative MPT binding site; other site 994484005588 lipid kinase; Reviewed; Region: PRK13054 994484005589 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 994484005590 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484005591 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 994484005592 active site 994484005593 phosphorylation site [posttranslational modification] 994484005594 intermolecular recognition site; other site 994484005595 dimerization interface [polypeptide binding]; other site 994484005596 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484005597 DNA binding residues [nucleotide binding] 994484005598 dimerization interface [polypeptide binding]; other site 994484005599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484005600 Histidine kinase; Region: HisKA_3; pfam07730 994484005601 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 994484005602 ATP binding site [chemical binding]; other site 994484005603 Mg2+ binding site [ion binding]; other site 994484005604 G-X-G motif; other site 994484005605 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 994484005606 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484005607 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 994484005608 active site 994484005609 phosphorylation site [posttranslational modification] 994484005610 intermolecular recognition site; other site 994484005611 dimerization interface [polypeptide binding]; other site 994484005612 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 994484005613 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 994484005614 MOSC domain; Region: MOSC; pfam03473 994484005615 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 994484005616 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 994484005617 active site 994484005618 catalytic site [active] 994484005619 substrate binding site [chemical binding]; other site 994484005620 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 994484005621 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484005622 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 994484005623 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 994484005624 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 994484005625 carboxyltransferase (CT) interaction site; other site 994484005626 biotinylation site [posttranslational modification]; other site 994484005627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484005628 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484005629 active site 994484005630 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 994484005631 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 994484005632 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 994484005633 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 994484005634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484005635 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484005636 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484005637 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484005638 substrate binding pocket [chemical binding]; other site 994484005639 membrane-bound complex binding site; other site 994484005640 hinge residues; other site 994484005641 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 994484005642 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 994484005643 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 994484005644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005645 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484005646 DNA binding residues [nucleotide binding] 994484005647 peptide synthase; Validated; Region: PRK05691 994484005648 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 994484005649 acyl-activating enzyme (AAE) consensus motif; other site 994484005650 active site 994484005651 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484005652 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484005653 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484005654 acyl-activating enzyme (AAE) consensus motif; other site 994484005655 AMP binding site [chemical binding]; other site 994484005656 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484005657 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484005658 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484005659 acyl-activating enzyme (AAE) consensus motif; other site 994484005660 AMP binding site [chemical binding]; other site 994484005661 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484005662 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484005663 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484005664 acyl-activating enzyme (AAE) consensus motif; other site 994484005665 AMP binding site [chemical binding]; other site 994484005666 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484005667 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484005668 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 994484005669 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 994484005670 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 994484005671 dimerization domain [polypeptide binding]; other site 994484005672 dimer interface [polypeptide binding]; other site 994484005673 catalytic residues [active] 994484005674 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 994484005675 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 994484005676 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 994484005677 catalytic residues [active] 994484005678 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 994484005679 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 994484005680 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 994484005681 DsbD alpha interface [polypeptide binding]; other site 994484005682 catalytic residues [active] 994484005683 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 994484005684 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 994484005685 active site 994484005686 phosphorylation site [posttranslational modification] 994484005687 intermolecular recognition site; other site 994484005688 dimerization interface [polypeptide binding]; other site 994484005689 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484005690 DNA binding site [nucleotide binding] 994484005691 sensor protein QseC; Provisional; Region: PRK10337 994484005692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484005693 dimer interface [polypeptide binding]; other site 994484005694 phosphorylation site [posttranslational modification] 994484005695 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 994484005696 ATP binding site [chemical binding]; other site 994484005697 G-X-G motif; other site 994484005698 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 994484005699 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 994484005700 inhibitor-cofactor binding pocket; inhibition site 994484005701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484005702 catalytic residue [active] 994484005703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 994484005704 PEP synthetase regulatory protein; Provisional; Region: PRK05339 994484005705 phosphoenolpyruvate synthase; Validated; Region: PRK06464 994484005706 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 994484005707 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 994484005708 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 994484005709 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484005710 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 994484005711 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 994484005712 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 994484005713 Cl binding site [ion binding]; other site 994484005714 oligomer interface [polypeptide binding]; other site 994484005715 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 994484005716 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484005717 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484005718 DNA binding residues [nucleotide binding] 994484005719 OprF membrane domain; Region: OprF; pfam05736 994484005720 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484005721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484005722 ligand binding site [chemical binding]; other site 994484005723 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 994484005724 active site 994484005725 SAM binding site [chemical binding]; other site 994484005726 homodimer interface [polypeptide binding]; other site 994484005727 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 994484005728 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 994484005729 [4Fe-4S] binding site [ion binding]; other site 994484005730 molybdopterin cofactor binding site; other site 994484005731 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 994484005732 molybdopterin cofactor binding site; other site 994484005733 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484005734 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 994484005735 [2Fe-2S] cluster binding site [ion binding]; other site 994484005736 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 994484005737 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484005738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484005739 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484005740 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484005741 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484005742 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 994484005743 active site 994484005744 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 994484005745 Catalytic domain of Protein Kinases; Region: PKc; cd00180 994484005746 active site 994484005747 ATP binding site [chemical binding]; other site 994484005748 substrate binding site [chemical binding]; other site 994484005749 activation loop (A-loop); other site 994484005750 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 994484005751 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484005752 putative substrate translocation pore; other site 994484005753 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 994484005754 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 994484005755 active site 994484005756 phosphorylation site [posttranslational modification] 994484005757 intermolecular recognition site; other site 994484005758 dimerization interface [polypeptide binding]; other site 994484005759 ANTAR domain; Region: ANTAR; pfam03861 994484005760 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 994484005761 NMT1-like family; Region: NMT1_2; pfam13379 994484005762 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 994484005763 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 994484005764 quinone interaction residues [chemical binding]; other site 994484005765 active site 994484005766 catalytic residues [active] 994484005767 FMN binding site [chemical binding]; other site 994484005768 substrate binding site [chemical binding]; other site 994484005769 Ribosome modulation factor; Region: RMF; pfam04957 994484005770 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 994484005771 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 994484005772 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 994484005773 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 994484005774 S-adenosylmethionine binding site [chemical binding]; other site 994484005775 CHASE domain; Region: CHASE; pfam03924 994484005776 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 994484005777 PAS domain; Region: PAS_9; pfam13426 994484005778 putative active site [active] 994484005779 heme pocket [chemical binding]; other site 994484005780 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 994484005781 PAS fold; Region: PAS_3; pfam08447 994484005782 putative active site [active] 994484005783 heme pocket [chemical binding]; other site 994484005784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484005785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005786 metal binding site [ion binding]; metal-binding site 994484005787 active site 994484005788 I-site; other site 994484005789 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 994484005790 Protein with unknown function (DUF469); Region: DUF469; cl01237 994484005791 benzoate transporter; Region: benE; TIGR00843 994484005792 Benzoate membrane transport protein; Region: BenE; pfam03594 994484005793 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484005794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484005795 DNA-binding site [nucleotide binding]; DNA binding site 994484005796 FCD domain; Region: FCD; pfam07729 994484005797 guanine deaminase; Provisional; Region: PRK09228 994484005798 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 994484005799 active site 994484005800 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 994484005801 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 994484005802 XdhC Rossmann domain; Region: XdhC_C; pfam13478 994484005803 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 994484005804 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 994484005805 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484005806 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 994484005807 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 994484005808 catalytic loop [active] 994484005809 iron binding site [ion binding]; other site 994484005810 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484005811 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 994484005812 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484005813 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484005814 DNA-binding site [nucleotide binding]; DNA binding site 994484005815 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 994484005816 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 994484005817 Walker A/P-loop; other site 994484005818 ATP binding site [chemical binding]; other site 994484005819 Q-loop/lid; other site 994484005820 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 994484005821 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 994484005822 ABC transporter signature motif; other site 994484005823 Walker B; other site 994484005824 D-loop; other site 994484005825 H-loop/switch region; other site 994484005826 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 994484005827 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 994484005828 FtsZ protein binding site [polypeptide binding]; other site 994484005829 Ligase N family; Region: LIGANc; smart00532 994484005830 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 994484005831 nucleotide binding pocket [chemical binding]; other site 994484005832 K-X-D-G motif; other site 994484005833 catalytic site [active] 994484005834 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 994484005835 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 994484005836 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 994484005837 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 994484005838 Dimer interface [polypeptide binding]; other site 994484005839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 994484005840 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 994484005841 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 994484005842 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 994484005843 non-specific DNA binding site [nucleotide binding]; other site 994484005844 salt bridge; other site 994484005845 sequence-specific DNA binding site [nucleotide binding]; other site 994484005846 PAS domain; Region: PAS_9; pfam13426 994484005847 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 994484005848 putative active site [active] 994484005849 heme pocket [chemical binding]; other site 994484005850 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484005851 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484005852 metal binding site [ion binding]; metal-binding site 994484005853 active site 994484005854 I-site; other site 994484005855 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 994484005856 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484005857 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484005858 substrate binding pocket [chemical binding]; other site 994484005859 membrane-bound complex binding site; other site 994484005860 hinge residues; other site 994484005861 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 994484005862 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484005863 Walker A motif; other site 994484005864 ATP binding site [chemical binding]; other site 994484005865 Walker B motif; other site 994484005866 arginine finger; other site 994484005867 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 994484005868 hypothetical protein; Validated; Region: PRK00153 994484005869 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 994484005870 Prostaglandin dehydrogenases; Region: PGDH; cd05288 994484005871 NAD(P) binding site [chemical binding]; other site 994484005872 substrate binding site [chemical binding]; other site 994484005873 dimer interface [polypeptide binding]; other site 994484005874 recombination protein RecR; Reviewed; Region: recR; PRK00076 994484005875 RecR protein; Region: RecR; pfam02132 994484005876 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 994484005877 putative active site [active] 994484005878 putative metal-binding site [ion binding]; other site 994484005879 tetramer interface [polypeptide binding]; other site 994484005880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484005881 active site 994484005882 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 994484005883 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 994484005884 ligand binding site [chemical binding]; other site 994484005885 flexible hinge region; other site 994484005886 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 994484005887 putative switch regulator; other site 994484005888 non-specific DNA interactions [nucleotide binding]; other site 994484005889 DNA binding site [nucleotide binding] 994484005890 sequence specific DNA binding site [nucleotide binding]; other site 994484005891 putative cAMP binding site [chemical binding]; other site 994484005892 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 994484005893 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 994484005894 FeS/SAM binding site; other site 994484005895 HemN C-terminal domain; Region: HemN_C; pfam06969 994484005896 Uncharacterized conserved protein [Function unknown]; Region: COG2836 994484005897 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 994484005898 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 994484005899 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 994484005900 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 994484005901 metal-binding site [ion binding] 994484005902 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484005903 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 994484005904 motif II; other site 994484005905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 994484005906 FixH; Region: FixH; pfam05751 994484005907 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 994484005908 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484005909 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 994484005910 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 994484005911 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 994484005912 Cytochrome c; Region: Cytochrom_C; pfam00034 994484005913 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 994484005914 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 994484005915 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 994484005916 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 994484005917 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 994484005918 Low-spin heme binding site [chemical binding]; other site 994484005919 Putative water exit pathway; other site 994484005920 Binuclear center (active site) [active] 994484005921 Putative proton exit pathway; other site 994484005922 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 994484005923 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 994484005924 Cytochrome c; Region: Cytochrom_C; cl11414 994484005925 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 994484005926 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 994484005927 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 994484005928 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 994484005929 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 994484005930 Low-spin heme binding site [chemical binding]; other site 994484005931 Putative water exit pathway; other site 994484005932 Binuclear center (active site) [active] 994484005933 Putative proton exit pathway; other site 994484005934 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 994484005935 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 994484005936 PAS domain; Region: PAS_9; pfam13426 994484005937 putative active site [active] 994484005938 heme pocket [chemical binding]; other site 994484005939 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484005940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484005941 dimer interface [polypeptide binding]; other site 994484005942 putative CheW interface [polypeptide binding]; other site 994484005943 aconitate hydratase; Validated; Region: PRK09277 994484005944 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 994484005945 substrate binding site [chemical binding]; other site 994484005946 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 994484005947 ligand binding site [chemical binding]; other site 994484005948 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 994484005949 substrate binding site [chemical binding]; other site 994484005950 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 994484005951 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 994484005952 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 994484005953 CPxP motif; other site 994484005954 multidrug efflux protein; Reviewed; Region: PRK01766 994484005955 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 994484005956 cation binding site [ion binding]; other site 994484005957 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 994484005958 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 994484005959 ligand binding site [chemical binding]; other site 994484005960 NAD binding site [chemical binding]; other site 994484005961 catalytic site [active] 994484005962 homodimer interface [polypeptide binding]; other site 994484005963 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 994484005964 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484005965 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 994484005966 Walker A/P-loop; other site 994484005967 ATP binding site [chemical binding]; other site 994484005968 Q-loop/lid; other site 994484005969 ABC transporter signature motif; other site 994484005970 Walker B; other site 994484005971 D-loop; other site 994484005972 H-loop/switch region; other site 994484005973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 994484005974 Integrase core domain; Region: rve; pfam00665 994484005975 Integrase core domain; Region: rve_3; pfam13683 994484005976 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 994484005977 Homeodomain-like domain; Region: HTH_23; cl17451 994484005978 lytic murein transglycosylase; Provisional; Region: PRK11619 994484005979 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484005980 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484005981 catalytic residue [active] 994484005982 ABC transporter ATPase component; Reviewed; Region: PRK11147 994484005983 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484005984 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484005985 ABC transporter; Region: ABC_tran_2; pfam12848 994484005986 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484005987 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 994484005988 Ligand Binding Site [chemical binding]; other site 994484005989 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 994484005990 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 994484005991 substrate binding site [chemical binding]; other site 994484005992 oxyanion hole (OAH) forming residues; other site 994484005993 trimer interface [polypeptide binding]; other site 994484005994 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484005995 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484005996 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 994484005997 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 994484005998 dimer interface [polypeptide binding]; other site 994484005999 active site 994484006000 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 994484006001 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 994484006002 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 994484006003 active site 994484006004 interdomain interaction site; other site 994484006005 putative metal-binding site [ion binding]; other site 994484006006 nucleotide binding site [chemical binding]; other site 994484006007 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 994484006008 domain I; other site 994484006009 DNA binding groove [nucleotide binding] 994484006010 phosphate binding site [ion binding]; other site 994484006011 domain II; other site 994484006012 domain III; other site 994484006013 nucleotide binding site [chemical binding]; other site 994484006014 catalytic site [active] 994484006015 domain IV; other site 994484006016 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 994484006017 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 994484006018 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 994484006019 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 994484006020 Cell division inhibitor SulA; Region: SulA; cl01880 994484006021 LexA repressor; Validated; Region: PRK00215 994484006022 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 994484006023 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 994484006024 Catalytic site [active] 994484006025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484006026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484006027 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 994484006028 beta-hexosaminidase; Provisional; Region: PRK05337 994484006029 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 994484006030 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 994484006031 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 994484006032 ATP binding site [chemical binding]; other site 994484006033 putative Mg++ binding site [ion binding]; other site 994484006034 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 994484006035 nucleotide binding region [chemical binding]; other site 994484006036 ATP-binding site [chemical binding]; other site 994484006037 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 994484006038 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 994484006039 ATP binding site [chemical binding]; other site 994484006040 putative Mg++ binding site [ion binding]; other site 994484006041 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 994484006042 nucleotide binding region [chemical binding]; other site 994484006043 ATP-binding site [chemical binding]; other site 994484006044 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 994484006045 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 994484006046 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 994484006047 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 994484006048 ATP binding site [chemical binding]; other site 994484006049 putative Mg++ binding site [ion binding]; other site 994484006050 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 994484006051 nucleotide binding region [chemical binding]; other site 994484006052 ATP-binding site [chemical binding]; other site 994484006053 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 994484006054 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 994484006055 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 994484006056 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484006057 citrate-proton symporter; Provisional; Region: PRK15075 994484006058 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484006059 putative substrate translocation pore; other site 994484006060 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 994484006061 ApbE family; Region: ApbE; pfam02424 994484006062 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 994484006063 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484006064 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484006065 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 994484006066 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 994484006067 active site 994484006068 catalytic site [active] 994484006069 PilZ domain; Region: PilZ; pfam07238 994484006070 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 994484006071 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484006072 FtsX-like permease family; Region: FtsX; pfam02687 994484006073 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 994484006074 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 994484006075 Walker A/P-loop; other site 994484006076 ATP binding site [chemical binding]; other site 994484006077 Q-loop/lid; other site 994484006078 ABC transporter signature motif; other site 994484006079 Walker B; other site 994484006080 D-loop; other site 994484006081 H-loop/switch region; other site 994484006082 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 994484006083 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484006084 FtsX-like permease family; Region: FtsX; pfam02687 994484006085 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484006086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484006087 dimer interface [polypeptide binding]; other site 994484006088 phosphorylation site [posttranslational modification] 994484006089 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 994484006090 ATP binding site [chemical binding]; other site 994484006091 Mg2+ binding site [ion binding]; other site 994484006092 G-X-G motif; other site 994484006093 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 994484006094 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 994484006095 active site 994484006096 phosphorylation site [posttranslational modification] 994484006097 intermolecular recognition site; other site 994484006098 dimerization interface [polypeptide binding]; other site 994484006099 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484006100 DNA binding site [nucleotide binding] 994484006101 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 994484006102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 994484006103 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 994484006104 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 994484006105 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 994484006106 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 994484006107 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 994484006108 Response regulator receiver domain; Region: Response_reg; pfam00072 994484006109 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 994484006110 active site 994484006111 phosphorylation site [posttranslational modification] 994484006112 intermolecular recognition site; other site 994484006113 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 994484006114 dimerization interface [polypeptide binding]; other site 994484006115 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 994484006116 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 994484006117 anti sigma factor interaction site; other site 994484006118 regulatory phosphorylation site [posttranslational modification]; other site 994484006119 transaldolase-like protein; Provisional; Region: PTZ00411 994484006120 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 994484006121 active site 994484006122 dimer interface [polypeptide binding]; other site 994484006123 catalytic residue [active] 994484006124 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 994484006125 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 994484006126 FMN binding site [chemical binding]; other site 994484006127 active site 994484006128 catalytic residues [active] 994484006129 substrate binding site [chemical binding]; other site 994484006130 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 994484006131 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 994484006132 active site 994484006133 metal binding site [ion binding]; metal-binding site 994484006134 Fic/DOC family; Region: Fic; cl00960 994484006135 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 994484006136 cell density-dependent motility repressor; Provisional; Region: PRK10082 994484006137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006138 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 994484006139 dimerization interface [polypeptide binding]; other site 994484006140 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484006141 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 994484006142 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 994484006143 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484006144 aspartate racemase; Region: asp_race; TIGR00035 994484006145 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484006146 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484006147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006148 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484006149 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 994484006150 putative NAD(P) binding site [chemical binding]; other site 994484006151 putative substrate binding site [chemical binding]; other site 994484006152 catalytic Zn binding site [ion binding]; other site 994484006153 structural Zn binding site [ion binding]; other site 994484006154 dimer interface [polypeptide binding]; other site 994484006155 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484006156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484006157 putative substrate translocation pore; other site 994484006158 DoxX-like family; Region: DoxX_2; pfam13564 994484006159 Predicted transcriptional regulators [Transcription]; Region: COG1733 994484006160 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 994484006161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484006162 Coenzyme A binding pocket [chemical binding]; other site 994484006163 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 994484006164 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 994484006165 Chromate transporter; Region: Chromate_transp; pfam02417 994484006166 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 994484006167 B1 nucleotide binding pocket [chemical binding]; other site 994484006168 B2 nucleotide binding pocket [chemical binding]; other site 994484006169 CAS motifs; other site 994484006170 active site 994484006171 Cache domain; Region: Cache_1; pfam02743 994484006172 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484006173 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484006174 metal binding site [ion binding]; metal-binding site 994484006175 active site 994484006176 I-site; other site 994484006177 CHASE4 domain; Region: CHASE4; pfam05228 994484006178 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 994484006179 PAS domain; Region: PAS_9; pfam13426 994484006180 putative active site [active] 994484006181 heme pocket [chemical binding]; other site 994484006182 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484006183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484006184 metal binding site [ion binding]; metal-binding site 994484006185 active site 994484006186 I-site; other site 994484006187 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 994484006188 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 994484006189 putative catalytic site [active] 994484006190 putative phosphate binding site [ion binding]; other site 994484006191 active site 994484006192 metal binding site A [ion binding]; metal-binding site 994484006193 DNA binding site [nucleotide binding] 994484006194 putative AP binding site [nucleotide binding]; other site 994484006195 putative metal binding site B [ion binding]; other site 994484006196 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 994484006197 xanthine permease; Region: pbuX; TIGR03173 994484006198 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 994484006199 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 994484006200 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484006201 shikimate binding site; other site 994484006202 NAD(P) binding site [chemical binding]; other site 994484006203 Protein of unknown function, DUF480; Region: DUF480; pfam04337 994484006204 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 994484006205 serine/threonine transporter SstT; Provisional; Region: PRK13628 994484006206 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484006207 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484006208 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484006209 putative substrate translocation pore; other site 994484006210 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 994484006211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006212 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 994484006213 putative dimerization interface [polypeptide binding]; other site 994484006214 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 994484006215 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); Region: Peptidase_C39_like; cl00296 994484006216 putative active site [active] 994484006217 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 994484006218 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 994484006219 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 994484006220 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 994484006221 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 994484006222 homodimer interface [polypeptide binding]; other site 994484006223 NADP binding site [chemical binding]; other site 994484006224 substrate binding site [chemical binding]; other site 994484006225 trigger factor; Provisional; Region: tig; PRK01490 994484006226 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484006227 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 994484006228 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 994484006229 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 994484006230 oligomer interface [polypeptide binding]; other site 994484006231 active site residues [active] 994484006232 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 994484006233 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 994484006234 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484006235 Walker A motif; other site 994484006236 ATP binding site [chemical binding]; other site 994484006237 Walker B motif; other site 994484006238 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 994484006239 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 994484006240 Found in ATP-dependent protease La (LON); Region: LON; smart00464 994484006241 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484006242 Walker A motif; other site 994484006243 ATP binding site [chemical binding]; other site 994484006244 Walker B motif; other site 994484006245 arginine finger; other site 994484006246 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484006247 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 994484006248 IHF - DNA interface [nucleotide binding]; other site 994484006249 IHF dimer interface [polypeptide binding]; other site 994484006250 periplasmic folding chaperone; Provisional; Region: PRK10788 994484006251 SurA N-terminal domain; Region: SurA_N_3; pfam13624 994484006252 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 994484006253 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 994484006254 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484006255 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484006256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006257 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 994484006258 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484006259 active site 994484006260 catalytic triad [active] 994484006261 dimer interface [polypeptide binding]; other site 994484006262 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 994484006263 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484006264 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 994484006265 active site 994484006266 FMN binding site [chemical binding]; other site 994484006267 2,4-decadienoyl-CoA binding site; other site 994484006268 catalytic residue [active] 994484006269 4Fe-4S cluster binding site [ion binding]; other site 994484006270 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484006271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484006272 D-cysteine desulfhydrase; Validated; Region: PRK03910 994484006273 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 994484006274 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484006275 catalytic residue [active] 994484006276 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 994484006277 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484006278 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 994484006279 hypothetical protein; Provisional; Region: PRK12378 994484006280 Leucine rich repeat; Region: LRR_8; pfam13855 994484006281 Leucine rich repeat; Region: LRR_8; pfam13855 994484006282 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 994484006283 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484006284 active site 994484006285 ATP binding site [chemical binding]; other site 994484006286 substrate binding site [chemical binding]; other site 994484006287 activation loop (A-loop); other site 994484006288 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 994484006289 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 994484006290 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484006291 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484006292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484006293 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484006294 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484006295 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484006296 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006297 dimer interface [polypeptide binding]; other site 994484006298 conserved gate region; other site 994484006299 putative PBP binding loops; other site 994484006300 ABC-ATPase subunit interface; other site 994484006301 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 994484006302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006303 dimer interface [polypeptide binding]; other site 994484006304 conserved gate region; other site 994484006305 putative PBP binding loops; other site 994484006306 ABC-ATPase subunit interface; other site 994484006307 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484006308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484006309 Walker A/P-loop; other site 994484006310 ATP binding site [chemical binding]; other site 994484006311 Q-loop/lid; other site 994484006312 ABC transporter signature motif; other site 994484006313 Walker B; other site 994484006314 D-loop; other site 994484006315 H-loop/switch region; other site 994484006316 TOBE domain; Region: TOBE_2; pfam08402 994484006317 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484006318 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 994484006319 putative DNA binding site [nucleotide binding]; other site 994484006320 putative Zn2+ binding site [ion binding]; other site 994484006321 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484006322 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 994484006323 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484006324 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484006325 DNA binding residues [nucleotide binding] 994484006326 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 994484006327 putative heme binding pocket [chemical binding]; other site 994484006328 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 994484006329 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 994484006330 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 994484006331 active site 994484006332 Zn binding site [ion binding]; other site 994484006333 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 994484006334 non-specific DNA binding site [nucleotide binding]; other site 994484006335 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 994484006336 salt bridge; other site 994484006337 sequence-specific DNA binding site [nucleotide binding]; other site 994484006338 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 994484006339 Catalytic site [active] 994484006340 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 994484006341 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484006342 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 994484006343 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 994484006344 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 994484006345 carboxyltransferase (CT) interaction site; other site 994484006346 biotinylation site [posttranslational modification]; other site 994484006347 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 994484006348 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 994484006349 substrate binding site [chemical binding]; other site 994484006350 oxyanion hole (OAH) forming residues; other site 994484006351 trimer interface [polypeptide binding]; other site 994484006352 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 994484006353 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 994484006354 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 994484006355 isovaleryl-CoA dehydrogenase; Region: PLN02519 994484006356 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 994484006357 substrate binding site [chemical binding]; other site 994484006358 FAD binding site [chemical binding]; other site 994484006359 catalytic base [active] 994484006360 AMP-binding domain protein; Validated; Region: PRK08315 994484006361 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484006362 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 994484006363 acyl-activating enzyme (AAE) consensus motif; other site 994484006364 putative AMP binding site [chemical binding]; other site 994484006365 putative active site [active] 994484006366 putative CoA binding site [chemical binding]; other site 994484006367 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 994484006368 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 994484006369 active site 994484006370 catalytic residues [active] 994484006371 metal binding site [ion binding]; metal-binding site 994484006372 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 994484006373 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 994484006374 DNA binding residues [nucleotide binding] 994484006375 putative dimer interface [polypeptide binding]; other site 994484006376 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 994484006377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006378 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 994484006379 substrate binding pocket [chemical binding]; other site 994484006380 dimerization interface [polypeptide binding]; other site 994484006381 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484006382 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 994484006383 FAD binding site [chemical binding]; other site 994484006384 substrate binding site [chemical binding]; other site 994484006385 catalytic base [active] 994484006386 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 994484006387 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 994484006388 tetramer interface [polypeptide binding]; other site 994484006389 active site 994484006390 Mg2+/Mn2+ binding site [ion binding]; other site 994484006391 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484006392 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 994484006393 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484006394 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 994484006395 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484006396 N-formylglutamate amidohydrolase; Region: FGase; cl01522 994484006397 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484006398 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484006399 Isochorismatase family; Region: Isochorismatase; pfam00857 994484006400 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 994484006401 catalytic triad [active] 994484006402 conserved cis-peptide bond; other site 994484006403 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484006404 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 994484006405 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 994484006406 putative active site [active] 994484006407 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 994484006408 catalytic core [active] 994484006409 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 994484006410 active site 994484006411 SAM binding site [chemical binding]; other site 994484006412 homodimer interface [polypeptide binding]; other site 994484006413 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 994484006414 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484006415 conserved cys residue [active] 994484006416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006417 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006418 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 994484006419 active site residue [active] 994484006420 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484006421 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484006422 substrate binding pocket [chemical binding]; other site 994484006423 membrane-bound complex binding site; other site 994484006424 hinge residues; other site 994484006425 Predicted deacylase [General function prediction only]; Region: COG3608 994484006426 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 994484006427 active site 994484006428 Zn binding site [ion binding]; other site 994484006429 Predicted esterase [General function prediction only]; Region: COG0400 994484006430 putative hydrolase; Provisional; Region: PRK11460 994484006431 Purine nucleoside permease (NUP); Region: NUP; pfam06516 994484006432 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 994484006433 selenophosphate synthetase; Provisional; Region: PRK00943 994484006434 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 994484006435 dimerization interface [polypeptide binding]; other site 994484006436 putative ATP binding site [chemical binding]; other site 994484006437 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 994484006438 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 994484006439 active site residue [active] 994484006440 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 994484006441 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 994484006442 C-terminal domain interface [polypeptide binding]; other site 994484006443 GSH binding site (G-site) [chemical binding]; other site 994484006444 dimer interface [polypeptide binding]; other site 994484006445 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 994484006446 dimer interface [polypeptide binding]; other site 994484006447 N-terminal domain interface [polypeptide binding]; other site 994484006448 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 994484006449 dimer interface [polypeptide binding]; other site 994484006450 active site 994484006451 Schiff base residues; other site 994484006452 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 994484006453 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484006454 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484006455 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 994484006456 dimer interface [polypeptide binding]; other site 994484006457 N-terminal domain interface [polypeptide binding]; other site 994484006458 substrate binding pocket (H-site) [chemical binding]; other site 994484006459 Protein of unknown function (DUF330); Region: DUF330; pfam03886 994484006460 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 994484006461 mce related protein; Region: MCE; pfam02470 994484006462 mce related protein; Region: MCE; pfam02470 994484006463 mce related protein; Region: MCE; pfam02470 994484006464 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484006465 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484006466 FOG: CBS domain [General function prediction only]; Region: COG0517 994484006467 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 994484006468 DNA polymerase II; Reviewed; Region: PRK05762 994484006469 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 994484006470 active site 994484006471 catalytic site [active] 994484006472 substrate binding site [chemical binding]; other site 994484006473 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 994484006474 active site 994484006475 metal-binding site 994484006476 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484006477 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484006478 active site 994484006479 catalytic tetrad [active] 994484006480 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 994484006481 active site 994484006482 catalytic residues [active] 994484006483 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484006484 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 994484006485 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 994484006486 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484006487 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 994484006488 short chain dehydrogenase; Provisional; Region: PRK06123 994484006489 classical (c) SDRs; Region: SDR_c; cd05233 994484006490 NAD(P) binding site [chemical binding]; other site 994484006491 active site 994484006492 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 994484006493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484006494 DNA-binding site [nucleotide binding]; DNA binding site 994484006495 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 994484006496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484006497 homodimer interface [polypeptide binding]; other site 994484006498 catalytic residue [active] 994484006499 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 994484006500 4Fe-4S binding domain; Region: Fer4_3; pfam12798 994484006501 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 994484006502 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 994484006503 MgtC family; Region: MgtC; pfam02308 994484006504 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 994484006505 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 994484006506 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 994484006507 active site 994484006508 homodimer interface [polypeptide binding]; other site 994484006509 catalytic site [active] 994484006510 acceptor binding site [chemical binding]; other site 994484006511 trehalose synthase; Region: treS_nterm; TIGR02456 994484006512 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 994484006513 active site 994484006514 catalytic site [active] 994484006515 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 994484006516 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 994484006517 glycogen branching enzyme; Provisional; Region: PRK05402 994484006518 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 994484006519 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 994484006520 active site 994484006521 catalytic site [active] 994484006522 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 994484006523 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 994484006524 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 994484006525 active site 994484006526 tetramer interface [polypeptide binding]; other site 994484006527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484006528 D-galactonate transporter; Region: 2A0114; TIGR00893 994484006529 putative substrate translocation pore; other site 994484006530 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484006531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484006532 DNA-binding site [nucleotide binding]; DNA binding site 994484006533 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484006534 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 994484006535 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 994484006536 dimer interface [polypeptide binding]; other site 994484006537 active site 994484006538 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 994484006539 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 994484006540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006542 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 994484006543 putative dimerization interface [polypeptide binding]; other site 994484006544 NAD-dependent deacetylase; Provisional; Region: PRK00481 994484006545 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 994484006546 NAD+ binding site [chemical binding]; other site 994484006547 substrate binding site [chemical binding]; other site 994484006548 Zn binding site [ion binding]; other site 994484006549 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 994484006550 General stress protein [General function prediction only]; Region: GsiB; COG3729 994484006551 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 994484006552 ZIP Zinc transporter; Region: Zip; pfam02535 994484006553 Uncharacterized conserved protein [Function unknown]; Region: COG3339 994484006554 glutaminase; Provisional; Region: PRK00971 994484006555 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 994484006556 DNA topoisomerase III; Provisional; Region: PRK07726 994484006557 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 994484006558 active site 994484006559 putative interdomain interaction site [polypeptide binding]; other site 994484006560 putative metal-binding site [ion binding]; other site 994484006561 putative nucleotide binding site [chemical binding]; other site 994484006562 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 994484006563 domain I; other site 994484006564 DNA binding groove [nucleotide binding] 994484006565 phosphate binding site [ion binding]; other site 994484006566 domain II; other site 994484006567 domain III; other site 994484006568 nucleotide binding site [chemical binding]; other site 994484006569 catalytic site [active] 994484006570 domain IV; other site 994484006571 Response regulator receiver domain; Region: Response_reg; pfam00072 994484006572 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 994484006573 active site 994484006574 phosphorylation site [posttranslational modification] 994484006575 intermolecular recognition site; other site 994484006576 dimerization interface [polypeptide binding]; other site 994484006577 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 994484006578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484006579 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484006580 DNA binding residues [nucleotide binding] 994484006581 fec operon regulator FecR; Reviewed; Region: PRK09774 994484006582 FecR protein; Region: FecR; pfam04773 994484006583 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484006584 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 994484006585 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 994484006586 N-terminal plug; other site 994484006587 ligand-binding site [chemical binding]; other site 994484006588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484006589 putative substrate translocation pore; other site 994484006590 choline dehydrogenase; Validated; Region: PRK02106 994484006591 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484006592 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484006593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006595 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 994484006596 dimerization interface [polypeptide binding]; other site 994484006597 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 994484006598 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 994484006599 FAD binding domain; Region: FAD_binding_4; pfam01565 994484006600 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 994484006601 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 994484006602 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484006603 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484006604 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006605 LexA repressor; Provisional; Region: PRK12423 994484006606 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 994484006607 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 994484006608 Catalytic site [active] 994484006609 Uncharacterized conserved protein [Function unknown]; Region: COG4544 994484006610 DNA Polymerase Y-family; Region: PolY_like; cd03468 994484006611 active site 994484006612 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 994484006613 DNA binding site [nucleotide binding] 994484006614 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 994484006615 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 994484006616 putative active site [active] 994484006617 putative PHP Thumb interface [polypeptide binding]; other site 994484006618 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 994484006619 generic binding surface I; other site 994484006620 generic binding surface II; other site 994484006621 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484006622 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 994484006623 putative active site [active] 994484006624 heme pocket [chemical binding]; other site 994484006625 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484006626 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484006627 dimer interface [polypeptide binding]; other site 994484006628 phosphorylation site [posttranslational modification] 994484006629 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 994484006630 ATP binding site [chemical binding]; other site 994484006631 G-X-G motif; other site 994484006632 Response regulator receiver domain; Region: Response_reg; pfam00072 994484006633 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 994484006634 active site 994484006635 phosphorylation site [posttranslational modification] 994484006636 intermolecular recognition site; other site 994484006637 dimerization interface [polypeptide binding]; other site 994484006638 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 994484006639 Protein of unknown function (DUF465); Region: DUF465; pfam04325 994484006640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006642 LysR substrate binding domain; Region: LysR_substrate; pfam03466 994484006643 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 994484006644 putative active site [active] 994484006645 putative substrate binding site [chemical binding]; other site 994484006646 putative cosubstrate binding site; other site 994484006647 catalytic site [active] 994484006648 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 994484006649 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 994484006650 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 994484006651 substrate binding site [chemical binding]; other site 994484006652 oxyanion hole (OAH) forming residues; other site 994484006653 trimer interface [polypeptide binding]; other site 994484006654 SCP-2 sterol transfer family; Region: SCP2; pfam02036 994484006655 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 994484006656 catalytic core [active] 994484006657 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 994484006658 putative inner membrane peptidase; Provisional; Region: PRK11778 994484006659 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 994484006660 tandem repeat interface [polypeptide binding]; other site 994484006661 oligomer interface [polypeptide binding]; other site 994484006662 active site residues [active] 994484006663 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 994484006664 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 994484006665 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484006666 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484006667 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 994484006668 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 994484006669 putative ligand binding site [chemical binding]; other site 994484006670 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 994484006671 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 994484006672 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 994484006673 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 994484006674 substrate binding pocket [chemical binding]; other site 994484006675 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 994484006676 B12 binding site [chemical binding]; other site 994484006677 cobalt ligand [ion binding]; other site 994484006678 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 994484006679 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 994484006680 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 994484006681 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 994484006682 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 994484006683 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 994484006684 active site 994484006685 SAM binding site [chemical binding]; other site 994484006686 homodimer interface [polypeptide binding]; other site 994484006687 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 994484006688 Predicted integral membrane protein [Function unknown]; Region: COG5446 994484006689 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 994484006690 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 994484006691 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 994484006692 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 994484006693 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 994484006694 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 994484006695 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 994484006696 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 994484006697 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484006698 Walker A motif; other site 994484006699 ATP binding site [chemical binding]; other site 994484006700 Walker B motif; other site 994484006701 arginine finger; other site 994484006702 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 994484006703 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 994484006704 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 994484006705 PLD-like domain; Region: PLDc_2; pfam13091 994484006706 putative active site [active] 994484006707 catalytic site [active] 994484006708 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 994484006709 PLD-like domain; Region: PLDc_2; pfam13091 994484006710 putative active site [active] 994484006711 catalytic site [active] 994484006712 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 994484006713 hypothetical protein; Provisional; Region: PRK10040 994484006714 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484006715 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484006716 substrate binding pocket [chemical binding]; other site 994484006717 membrane-bound complex binding site; other site 994484006718 hinge residues; other site 994484006719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006720 dimer interface [polypeptide binding]; other site 994484006721 conserved gate region; other site 994484006722 putative PBP binding loops; other site 994484006723 ABC-ATPase subunit interface; other site 994484006724 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484006725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006726 dimer interface [polypeptide binding]; other site 994484006727 conserved gate region; other site 994484006728 putative PBP binding loops; other site 994484006729 ABC-ATPase subunit interface; other site 994484006730 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484006731 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484006732 Walker A/P-loop; other site 994484006733 ATP binding site [chemical binding]; other site 994484006734 Q-loop/lid; other site 994484006735 ABC transporter signature motif; other site 994484006736 Walker B; other site 994484006737 D-loop; other site 994484006738 H-loop/switch region; other site 994484006739 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 994484006740 homotrimer interaction site [polypeptide binding]; other site 994484006741 putative active site [active] 994484006742 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484006743 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 994484006744 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484006745 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 994484006746 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 994484006747 dimer interface [polypeptide binding]; other site 994484006748 active site 994484006749 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484006750 substrate binding site [chemical binding]; other site 994484006751 catalytic residue [active] 994484006752 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 994484006753 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484006754 substrate binding site [chemical binding]; other site 994484006755 ATP binding site [chemical binding]; other site 994484006756 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 994484006757 PAS fold; Region: PAS_4; pfam08448 994484006758 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484006759 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 994484006760 heme pocket [chemical binding]; other site 994484006761 putative active site [active] 994484006762 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 994484006763 putative active site [active] 994484006764 heme pocket [chemical binding]; other site 994484006765 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484006766 dimer interface [polypeptide binding]; other site 994484006767 phosphorylation site [posttranslational modification] 994484006768 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 994484006769 ATP binding site [chemical binding]; other site 994484006770 Mg2+ binding site [ion binding]; other site 994484006771 G-X-G motif; other site 994484006772 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484006773 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 994484006774 active site 994484006775 phosphorylation site [posttranslational modification] 994484006776 intermolecular recognition site; other site 994484006777 dimerization interface [polypeptide binding]; other site 994484006778 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 994484006779 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484006780 Walker A motif; other site 994484006781 ATP binding site [chemical binding]; other site 994484006782 Walker B motif; other site 994484006783 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 994484006784 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 994484006785 acyl-activating enzyme (AAE) consensus motif; other site 994484006786 putative AMP binding site [chemical binding]; other site 994484006787 putative active site [active] 994484006788 putative CoA binding site [chemical binding]; other site 994484006789 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 994484006790 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 994484006791 NAD binding site [chemical binding]; other site 994484006792 homotetramer interface [polypeptide binding]; other site 994484006793 homodimer interface [polypeptide binding]; other site 994484006794 substrate binding site [chemical binding]; other site 994484006795 active site 994484006796 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 994484006797 PAS domain; Region: PAS; smart00091 994484006798 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 994484006799 putative active site [active] 994484006800 heme pocket [chemical binding]; other site 994484006801 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484006802 Walker B motif; other site 994484006803 arginine finger; other site 994484006804 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484006805 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 994484006806 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484006807 Walker A/P-loop; other site 994484006808 ATP binding site [chemical binding]; other site 994484006809 Q-loop/lid; other site 994484006810 ABC transporter signature motif; other site 994484006811 Walker B; other site 994484006812 D-loop; other site 994484006813 H-loop/switch region; other site 994484006814 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006815 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484006816 Walker A/P-loop; other site 994484006817 ATP binding site [chemical binding]; other site 994484006818 Q-loop/lid; other site 994484006819 ABC transporter signature motif; other site 994484006820 Walker B; other site 994484006821 D-loop; other site 994484006822 H-loop/switch region; other site 994484006823 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484006824 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 994484006825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006826 dimer interface [polypeptide binding]; other site 994484006827 conserved gate region; other site 994484006828 putative PBP binding loops; other site 994484006829 ABC-ATPase subunit interface; other site 994484006830 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 994484006831 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006832 dimer interface [polypeptide binding]; other site 994484006833 conserved gate region; other site 994484006834 putative PBP binding loops; other site 994484006835 ABC-ATPase subunit interface; other site 994484006836 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 994484006837 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 994484006838 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 994484006839 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 994484006840 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 994484006841 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 994484006842 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484006843 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 994484006844 active site 994484006845 catalytic triad [active] 994484006846 dimer interface [polypeptide binding]; other site 994484006847 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 994484006848 Coenzyme A binding pocket [chemical binding]; other site 994484006849 response regulator; Provisional; Region: PRK09483 994484006850 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 994484006851 active site 994484006852 phosphorylation site [posttranslational modification] 994484006853 intermolecular recognition site; other site 994484006854 dimerization interface [polypeptide binding]; other site 994484006855 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484006856 DNA binding residues [nucleotide binding] 994484006857 dimerization interface [polypeptide binding]; other site 994484006858 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 994484006859 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 994484006860 GIY-YIG motif/motif A; other site 994484006861 active site 994484006862 catalytic site [active] 994484006863 putative DNA binding site [nucleotide binding]; other site 994484006864 metal binding site [ion binding]; metal-binding site 994484006865 UvrB/uvrC motif; Region: UVR; pfam02151 994484006866 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 994484006867 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 994484006868 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 994484006869 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 994484006870 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 994484006871 active site 994484006872 substrate binding site [chemical binding]; other site 994484006873 Mg2+ binding site [ion binding]; other site 994484006874 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 994484006875 Putative helicase; Region: TraI_2; pfam07514 994484006876 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 994484006877 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 994484006878 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 994484006879 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 994484006880 hypothetical protein; Provisional; Region: PRK08317 994484006881 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 994484006882 S-adenosylmethionine binding site [chemical binding]; other site 994484006883 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 994484006884 MPN+ (JAMM) motif; other site 994484006885 Zinc-binding site [ion binding]; other site 994484006886 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 994484006887 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 994484006888 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 994484006889 Walker A motif; other site 994484006890 ATP binding site [chemical binding]; other site 994484006891 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 994484006892 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 994484006893 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 994484006894 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 994484006895 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 994484006896 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 994484006897 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 994484006898 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 994484006899 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 994484006900 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 994484006901 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 994484006902 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 994484006903 integrating conjugative element protein, PFL_4695 family; Region: ICE_PFL_4695; TIGR03765 994484006904 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 994484006905 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 994484006906 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 994484006907 DNA topoisomerase III; Provisional; Region: PRK07726 994484006908 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 994484006909 active site 994484006910 putative interdomain interaction site [polypeptide binding]; other site 994484006911 putative metal-binding site [ion binding]; other site 994484006912 putative nucleotide binding site [chemical binding]; other site 994484006913 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 994484006914 domain I; other site 994484006915 DNA binding groove [nucleotide binding] 994484006916 phosphate binding site [ion binding]; other site 994484006917 domain II; other site 994484006918 domain III; other site 994484006919 nucleotide binding site [chemical binding]; other site 994484006920 catalytic site [active] 994484006921 domain IV; other site 994484006922 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 994484006923 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 994484006924 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 994484006925 ssDNA binding site [nucleotide binding]; other site 994484006926 dimer interface [polypeptide binding]; other site 994484006927 tetramer (dimer of dimers) interface [polypeptide binding]; other site 994484006928 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 994484006929 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 994484006930 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 994484006931 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 994484006932 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 994484006933 ParB-like nuclease domain; Region: ParBc; cl02129 994484006934 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 994484006935 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 994484006936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006937 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 994484006938 dimerization interface [polypeptide binding]; other site 994484006939 substrate binding pocket [chemical binding]; other site 994484006940 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 994484006941 non-specific DNA binding site [nucleotide binding]; other site 994484006942 salt bridge; other site 994484006943 sequence-specific DNA binding site [nucleotide binding]; other site 994484006944 short chain dehydrogenase; Provisional; Region: PRK12937 994484006945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484006946 NAD(P) binding site [chemical binding]; other site 994484006947 active site 994484006948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484006949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006950 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 994484006951 putative effector binding pocket; other site 994484006952 putative dimerization interface [polypeptide binding]; other site 994484006953 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 994484006954 RibD C-terminal domain; Region: RibD_C; cl17279 994484006955 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 994484006956 S-adenosylmethionine binding site [chemical binding]; other site 994484006957 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484006958 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484006959 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484006960 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 994484006961 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484006962 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484006963 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484006964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484006965 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484006966 dimerization interface [polypeptide binding]; other site 994484006967 substrate binding pocket [chemical binding]; other site 994484006968 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484006969 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 994484006970 putative substrate binding site [chemical binding]; other site 994484006971 putative ATP binding site [chemical binding]; other site 994484006972 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484006973 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484006974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484006975 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484006976 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 994484006977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006978 dimer interface [polypeptide binding]; other site 994484006979 conserved gate region; other site 994484006980 putative PBP binding loops; other site 994484006981 ABC-ATPase subunit interface; other site 994484006982 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484006983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484006984 dimer interface [polypeptide binding]; other site 994484006985 conserved gate region; other site 994484006986 putative PBP binding loops; other site 994484006987 ABC-ATPase subunit interface; other site 994484006988 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484006989 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 994484006990 Walker A/P-loop; other site 994484006991 ATP binding site [chemical binding]; other site 994484006992 Q-loop/lid; other site 994484006993 ABC transporter signature motif; other site 994484006994 Walker B; other site 994484006995 D-loop; other site 994484006996 H-loop/switch region; other site 994484006997 TOBE domain; Region: TOBE; cl01440 994484006998 TOBE domain; Region: TOBE_2; pfam08402 994484006999 sorbitol dehydrogenase; Provisional; Region: PRK07067 994484007000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007001 NAD(P) binding site [chemical binding]; other site 994484007002 active site 994484007003 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484007004 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 994484007005 TLC ATP/ADP transporter; Region: TLC; cl03940 994484007006 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 994484007007 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 994484007008 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 994484007009 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484007010 putative NAD(P) binding site [chemical binding]; other site 994484007011 active site 994484007012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007014 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 994484007015 putative effector binding pocket; other site 994484007016 putative dimerization interface [polypeptide binding]; other site 994484007017 Uncharacterized conserved protein [Function unknown]; Region: COG4925 994484007018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007020 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 994484007021 putative effector binding pocket; other site 994484007022 putative dimerization interface [polypeptide binding]; other site 994484007023 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 994484007024 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 994484007025 XdhC Rossmann domain; Region: XdhC_C; pfam13478 994484007026 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 994484007027 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484007028 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484007029 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484007030 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484007031 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 994484007032 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 994484007033 FeS/SAM binding site; other site 994484007034 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 994484007035 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 994484007036 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 994484007037 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 994484007038 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 994484007039 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 994484007040 tricarballylate utilization protein B; Provisional; Region: PRK15033 994484007041 tricarballylate dehydrogenase; Validated; Region: PRK08274 994484007042 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 994484007043 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 994484007044 Trp docking motif [polypeptide binding]; other site 994484007045 putative active site [active] 994484007046 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 994484007047 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 994484007048 CoA binding domain; Region: CoA_binding_2; pfam13380 994484007049 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 994484007050 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 994484007051 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 994484007052 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 994484007053 catalytic loop [active] 994484007054 iron binding site [ion binding]; other site 994484007055 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 994484007056 FAD binding pocket [chemical binding]; other site 994484007057 FAD binding motif [chemical binding]; other site 994484007058 phosphate binding motif [ion binding]; other site 994484007059 beta-alpha-beta structure motif; other site 994484007060 NAD binding pocket [chemical binding]; other site 994484007061 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 994484007062 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 994484007063 substrate binding site [chemical binding]; other site 994484007064 oxyanion hole (OAH) forming residues; other site 994484007065 trimer interface [polypeptide binding]; other site 994484007066 enoyl-CoA hydratase; Provisional; Region: PRK06688 994484007067 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 994484007068 substrate binding site [chemical binding]; other site 994484007069 oxyanion hole (OAH) forming residues; other site 994484007070 trimer interface [polypeptide binding]; other site 994484007071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007073 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 994484007074 putative dimerization interface [polypeptide binding]; other site 994484007075 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 994484007076 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484007077 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484007078 Cache domain; Region: Cache_1; pfam02743 994484007079 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484007080 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484007081 dimerization interface [polypeptide binding]; other site 994484007082 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484007083 dimer interface [polypeptide binding]; other site 994484007084 putative CheW interface [polypeptide binding]; other site 994484007085 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007086 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484007087 putative substrate translocation pore; other site 994484007088 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 994484007089 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 994484007090 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 994484007091 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484007092 putative NAD(P) binding site [chemical binding]; other site 994484007093 putative active site [active] 994484007094 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 994484007095 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 994484007096 putative active site [active] 994484007097 putative metal binding site [ion binding]; other site 994484007098 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 994484007099 classical (c) SDRs; Region: SDR_c; cd05233 994484007100 NAD(P) binding site [chemical binding]; other site 994484007101 active site 994484007102 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 994484007103 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 994484007104 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 994484007105 DUF35 OB-fold domain; Region: DUF35; pfam01796 994484007106 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 994484007107 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 994484007108 active site 994484007109 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 994484007110 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 994484007111 substrate binding site [chemical binding]; other site 994484007112 oxyanion hole (OAH) forming residues; other site 994484007113 trimer interface [polypeptide binding]; other site 994484007114 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484007115 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484007116 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484007117 Rubredoxin [Energy production and conversion]; Region: COG1773 994484007118 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 994484007119 iron binding site [ion binding]; other site 994484007120 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484007121 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484007122 tetramerization interface [polypeptide binding]; other site 994484007123 NAD(P) binding site [chemical binding]; other site 994484007124 catalytic residues [active] 994484007125 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484007126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 994484007127 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 994484007128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007129 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 994484007130 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484007131 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007133 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 994484007134 putative effector binding pocket; other site 994484007135 putative dimerization interface [polypeptide binding]; other site 994484007136 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484007137 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 994484007138 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 994484007139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007141 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 994484007142 putative dimerization interface [polypeptide binding]; other site 994484007143 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 994484007144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007145 putative substrate translocation pore; other site 994484007146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007148 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 994484007149 putative effector binding pocket; other site 994484007150 putative dimerization interface [polypeptide binding]; other site 994484007151 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484007152 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 994484007153 choline dehydrogenase; Validated; Region: PRK02106 994484007154 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484007155 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 994484007156 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484007157 NAD binding site [chemical binding]; other site 994484007158 catalytic residues [active] 994484007159 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484007160 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 994484007161 catalytic loop [active] 994484007162 iron binding site [ion binding]; other site 994484007163 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484007164 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484007165 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484007166 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 994484007167 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484007168 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484007169 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484007170 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484007171 Cytochrome c; Region: Cytochrom_C; pfam00034 994484007172 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 994484007173 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 994484007174 putative active site [active] 994484007175 putative metal binding site [ion binding]; other site 994484007176 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484007177 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484007178 active site 994484007179 catalytic tetrad [active] 994484007180 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 994484007181 classical (c) SDRs; Region: SDR_c; cd05233 994484007182 NAD(P) binding site [chemical binding]; other site 994484007183 active site 994484007184 Uncharacterized conserved protein [Function unknown]; Region: COG4925 994484007185 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 994484007186 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484007187 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484007188 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 994484007189 putative heme binding pocket [chemical binding]; other site 994484007190 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 994484007191 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 994484007192 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 994484007193 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 994484007194 RES domain; Region: RES; pfam08808 994484007195 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 994484007196 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 994484007197 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 994484007198 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 994484007199 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 994484007200 [4Fe-4S] binding site [ion binding]; other site 994484007201 molybdopterin cofactor binding site; other site 994484007202 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 994484007203 molybdopterin cofactor binding site; other site 994484007204 NapD protein; Region: NapD; pfam03927 994484007205 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 994484007206 Nitrate and nitrite sensing; Region: NIT; pfam08376 994484007207 HAMP domain; Region: HAMP; pfam00672 994484007208 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484007209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484007210 dimer interface [polypeptide binding]; other site 994484007211 putative CheW interface [polypeptide binding]; other site 994484007212 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 994484007213 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 994484007214 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 994484007215 metal ion-dependent adhesion site (MIDAS); other site 994484007216 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484007217 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484007218 Walker A motif; other site 994484007219 ATP binding site [chemical binding]; other site 994484007220 Walker B motif; other site 994484007221 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 994484007222 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 994484007223 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 994484007224 Low-spin heme binding site [chemical binding]; other site 994484007225 D-pathway; other site 994484007226 Binuclear center (active site) [active] 994484007227 K-pathway; other site 994484007228 Putative proton exit pathway; other site 994484007229 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 994484007230 Cytochrome c; Region: Cytochrom_C; pfam00034 994484007231 Cytochrome c; Region: Cytochrom_C; pfam00034 994484007232 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 994484007233 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 994484007234 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484007235 nitrous-oxide reductase; Validated; Region: PRK02888 994484007236 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 994484007237 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 994484007238 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 994484007239 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 994484007240 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 994484007241 Walker A/P-loop; other site 994484007242 ATP binding site [chemical binding]; other site 994484007243 Q-loop/lid; other site 994484007244 ABC transporter signature motif; other site 994484007245 Walker B; other site 994484007246 D-loop; other site 994484007247 H-loop/switch region; other site 994484007248 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 994484007249 NosL; Region: NosL; pfam05573 994484007250 Cytochrome c; Region: Cytochrom_C; cl11414 994484007251 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 994484007252 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484007253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484007254 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 994484007255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 994484007256 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484007257 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 994484007258 iron binding site [ion binding]; other site 994484007259 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 994484007260 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 994484007261 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484007262 Walker A motif; other site 994484007263 ATP binding site [chemical binding]; other site 994484007264 Walker B motif; other site 994484007265 arginine finger; other site 994484007266 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 994484007267 Transposase; Region: HTH_Tnp_1; pfam01527 994484007268 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 994484007269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 994484007270 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 994484007271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 994484007272 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 994484007273 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 994484007274 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 994484007275 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 994484007276 active site 994484007277 homodimer interface [polypeptide binding]; other site 994484007278 homotetramer interface [polypeptide binding]; other site 994484007279 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007281 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 994484007282 dimerization interface [polypeptide binding]; other site 994484007283 substrate binding pocket [chemical binding]; other site 994484007284 Isochorismatase family; Region: Isochorismatase; pfam00857 994484007285 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 994484007286 catalytic triad [active] 994484007287 conserved cis-peptide bond; other site 994484007288 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 994484007289 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484007290 Na binding site [ion binding]; other site 994484007291 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 994484007292 PAS domain; Region: PAS_9; pfam13426 994484007293 putative active site [active] 994484007294 heme pocket [chemical binding]; other site 994484007295 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484007296 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 994484007297 Walker A motif; other site 994484007298 ATP binding site [chemical binding]; other site 994484007299 Walker B motif; other site 994484007300 arginine finger; other site 994484007301 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 994484007302 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484007303 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 994484007304 active site 994484007305 NAD binding site [chemical binding]; other site 994484007306 metal binding site [ion binding]; metal-binding site 994484007307 Putative cyclase; Region: Cyclase; pfam04199 994484007308 Putative cyclase; Region: Cyclase; cl00814 994484007309 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 994484007310 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 994484007311 NAD(P) binding site [chemical binding]; other site 994484007312 catalytic residues [active] 994484007313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007315 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 994484007316 putative dimerization interface [polypeptide binding]; other site 994484007317 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 994484007318 salt bridge; other site 994484007319 non-specific DNA binding site [nucleotide binding]; other site 994484007320 sequence-specific DNA binding site [nucleotide binding]; other site 994484007321 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 994484007322 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484007323 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 994484007324 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484007325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484007326 dimer interface [polypeptide binding]; other site 994484007327 conserved gate region; other site 994484007328 putative PBP binding loops; other site 994484007329 ABC-ATPase subunit interface; other site 994484007330 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484007331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484007332 dimer interface [polypeptide binding]; other site 994484007333 conserved gate region; other site 994484007334 putative PBP binding loops; other site 994484007335 ABC-ATPase subunit interface; other site 994484007336 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484007337 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484007338 Walker A/P-loop; other site 994484007339 ATP binding site [chemical binding]; other site 994484007340 Q-loop/lid; other site 994484007341 ABC transporter signature motif; other site 994484007342 Walker B; other site 994484007343 D-loop; other site 994484007344 H-loop/switch region; other site 994484007345 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 994484007346 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484007347 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484007348 Walker A/P-loop; other site 994484007349 ATP binding site [chemical binding]; other site 994484007350 Q-loop/lid; other site 994484007351 ABC transporter signature motif; other site 994484007352 Walker B; other site 994484007353 D-loop; other site 994484007354 H-loop/switch region; other site 994484007355 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 994484007356 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484007357 Beta-lactamase; Region: Beta-lactamase; pfam00144 994484007358 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484007359 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484007360 dimerization interface [polypeptide binding]; other site 994484007361 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484007362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484007363 dimer interface [polypeptide binding]; other site 994484007364 putative CheW interface [polypeptide binding]; other site 994484007365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007367 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 994484007368 putative substrate binding pocket [chemical binding]; other site 994484007369 putative dimerization interface [polypeptide binding]; other site 994484007370 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 994484007371 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484007372 putative active site [active] 994484007373 putative metal binding site [ion binding]; other site 994484007374 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 994484007375 iron-sulfur cluster [ion binding]; other site 994484007376 [2Fe-2S] cluster binding site [ion binding]; other site 994484007377 hypothetical protein; Provisional; Region: PRK06847 994484007378 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484007379 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484007380 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484007381 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484007382 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 994484007383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484007385 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 994484007386 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484007387 iron-sulfur cluster [ion binding]; other site 994484007388 [2Fe-2S] cluster binding site [ion binding]; other site 994484007389 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 994484007390 alpha subunit interface [polypeptide binding]; other site 994484007391 active site 994484007392 substrate binding site [chemical binding]; other site 994484007393 Fe binding site [ion binding]; other site 994484007394 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484007395 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 994484007396 iron-sulfur cluster [ion binding]; other site 994484007397 [2Fe-2S] cluster binding site [ion binding]; other site 994484007398 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 994484007399 alpha subunit interface [polypeptide binding]; other site 994484007400 active site 994484007401 substrate binding site [chemical binding]; other site 994484007402 Fe binding site [ion binding]; other site 994484007403 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484007404 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 994484007405 FMN-binding pocket [chemical binding]; other site 994484007406 flavin binding motif; other site 994484007407 phosphate binding motif [ion binding]; other site 994484007408 beta-alpha-beta structure motif; other site 994484007409 NAD binding pocket [chemical binding]; other site 994484007410 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 994484007411 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 994484007412 catalytic loop [active] 994484007413 iron binding site [ion binding]; other site 994484007414 Cupin domain; Region: Cupin_2; pfam07883 994484007415 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484007416 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484007417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007418 NAD(P) binding site [chemical binding]; other site 994484007419 active site 994484007420 Putative cyclase; Region: Cyclase; pfam04199 994484007421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007423 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 994484007424 putative dimerization interface [polypeptide binding]; other site 994484007425 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 994484007426 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 994484007427 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484007428 dimer interface [polypeptide binding]; other site 994484007429 catalytic residue [active] 994484007430 succinic semialdehyde dehydrogenase; Region: PLN02278 994484007431 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484007432 tetramerization interface [polypeptide binding]; other site 994484007433 NAD(P) binding site [chemical binding]; other site 994484007434 catalytic residues [active] 994484007435 hypothetical protein; Provisional; Region: PRK06847 994484007436 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484007437 EthD domain; Region: EthD; pfam07110 994484007438 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 994484007439 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 994484007440 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484007441 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484007442 substrate binding pocket [chemical binding]; other site 994484007443 membrane-bound complex binding site; other site 994484007444 hinge residues; other site 994484007445 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 994484007446 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 994484007447 metal binding site [ion binding]; metal-binding site 994484007448 putative dimer interface [polypeptide binding]; other site 994484007449 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484007450 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484007451 NAD(P) binding site [chemical binding]; other site 994484007452 catalytic residues [active] 994484007453 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 994484007454 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 994484007455 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 994484007456 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 994484007457 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 994484007458 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 994484007459 trimer interface [polypeptide binding]; other site 994484007460 active site 994484007461 substrate binding site [chemical binding]; other site 994484007462 CoA binding site [chemical binding]; other site 994484007463 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007464 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007465 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 994484007466 dimerization interface [polypeptide binding]; other site 994484007467 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484007468 benzoylformate decarboxylase; Reviewed; Region: PRK07092 994484007469 PYR/PP interface [polypeptide binding]; other site 994484007470 dimer interface [polypeptide binding]; other site 994484007471 TPP binding site [chemical binding]; other site 994484007472 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484007473 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 994484007474 TPP-binding site [chemical binding]; other site 994484007475 dimer interface [polypeptide binding]; other site 994484007476 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484007477 Cupin; Region: Cupin_6; pfam12852 994484007478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007479 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484007480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007481 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 994484007482 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007483 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 994484007484 dimer interface [polypeptide binding]; other site 994484007485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007487 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 994484007488 dimerization interface [polypeptide binding]; other site 994484007489 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484007490 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484007491 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484007492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007493 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 994484007494 Fusaric acid resistance protein family; Region: FUSC; pfam04632 994484007495 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 994484007496 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484007497 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484007498 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484007499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007500 NAD(P) binding site [chemical binding]; other site 994484007501 extended (e) SDRs; Region: SDR_e; cd08946 994484007502 NAD(P) binding site [chemical binding]; other site 994484007503 active site 994484007504 active site 994484007505 substrate binding site [chemical binding]; other site 994484007506 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 994484007507 PAS domain; Region: PAS_9; pfam13426 994484007508 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 994484007509 putative active site [active] 994484007510 heme pocket [chemical binding]; other site 994484007511 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484007512 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484007513 dimer interface [polypeptide binding]; other site 994484007514 putative CheW interface [polypeptide binding]; other site 994484007515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484007516 DNA-binding site [nucleotide binding]; DNA binding site 994484007517 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484007518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484007519 DNA-binding site [nucleotide binding]; DNA binding site 994484007520 hypothetical protein; Provisional; Region: PRK06102 994484007521 Amidase; Region: Amidase; cl11426 994484007522 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 994484007523 active site 994484007524 catalytic site [active] 994484007525 Zn binding site [ion binding]; other site 994484007526 tetramer interface [polypeptide binding]; other site 994484007527 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 994484007528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007529 benzoate transport; Region: 2A0115; TIGR00895 994484007530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007531 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484007532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484007533 NAD(P) binding site [chemical binding]; other site 994484007534 active site 994484007535 classical (c) SDRs; Region: SDR_c; cd05233 994484007536 NAD(P) binding site [chemical binding]; other site 994484007537 active site 994484007538 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 994484007539 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484007540 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 994484007541 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484007542 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 994484007543 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484007544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007545 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 994484007546 dimerization interface [polypeptide binding]; other site 994484007547 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 994484007548 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 994484007549 putative ligand binding site [chemical binding]; other site 994484007550 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484007551 dimerization interface [polypeptide binding]; other site 994484007552 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484007553 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484007554 dimer interface [polypeptide binding]; other site 994484007555 phosphorylation site [posttranslational modification] 994484007556 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 994484007557 ATP binding site [chemical binding]; other site 994484007558 Mg2+ binding site [ion binding]; other site 994484007559 G-X-G motif; other site 994484007560 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007561 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 994484007562 active site 994484007563 phosphorylation site [posttranslational modification] 994484007564 intermolecular recognition site; other site 994484007565 dimerization interface [polypeptide binding]; other site 994484007566 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 994484007567 ATP binding site [chemical binding]; other site 994484007568 Mg2+ binding site [ion binding]; other site 994484007569 G-X-G motif; other site 994484007570 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 994484007571 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 994484007572 putative DNA binding site [nucleotide binding]; other site 994484007573 putative Zn2+ binding site [ion binding]; other site 994484007574 AsnC family; Region: AsnC_trans_reg; pfam01037 994484007575 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 994484007576 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 994484007577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484007578 catalytic residue [active] 994484007579 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 994484007580 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 994484007581 dimer interface [polypeptide binding]; other site 994484007582 TPP-binding site [chemical binding]; other site 994484007583 glutamate carboxypeptidase; Reviewed; Region: PRK06133 994484007584 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 994484007585 metal binding site [ion binding]; metal-binding site 994484007586 dimer interface [polypeptide binding]; other site 994484007587 hypothetical protein; Provisional; Region: PRK07079 994484007588 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 994484007589 metal binding site [ion binding]; metal-binding site 994484007590 putative dimer interface [polypeptide binding]; other site 994484007591 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 994484007592 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484007593 Walker A/P-loop; other site 994484007594 ATP binding site [chemical binding]; other site 994484007595 Q-loop/lid; other site 994484007596 ABC transporter signature motif; other site 994484007597 Walker B; other site 994484007598 D-loop; other site 994484007599 H-loop/switch region; other site 994484007600 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484007601 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484007602 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484007603 Walker A/P-loop; other site 994484007604 ATP binding site [chemical binding]; other site 994484007605 Q-loop/lid; other site 994484007606 ABC transporter signature motif; other site 994484007607 Walker B; other site 994484007608 D-loop; other site 994484007609 H-loop/switch region; other site 994484007610 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484007611 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484007612 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484007613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484007614 dimer interface [polypeptide binding]; other site 994484007615 conserved gate region; other site 994484007616 putative PBP binding loops; other site 994484007617 ABC-ATPase subunit interface; other site 994484007618 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484007619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484007620 dimer interface [polypeptide binding]; other site 994484007621 conserved gate region; other site 994484007622 putative PBP binding loops; other site 994484007623 ABC-ATPase subunit interface; other site 994484007624 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484007625 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 994484007626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484007627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007628 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 994484007629 dimerization interface [polypeptide binding]; other site 994484007630 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 994484007631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007632 putative transporter; Provisional; Region: PRK10054 994484007633 putative substrate translocation pore; other site 994484007634 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 994484007635 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484007636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484007637 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484007638 dimerization interface [polypeptide binding]; other site 994484007639 substrate binding pocket [chemical binding]; other site 994484007640 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 994484007641 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 994484007642 EamA-like transporter family; Region: EamA; pfam00892 994484007643 short chain dehydrogenase; Provisional; Region: PRK06123 994484007644 classical (c) SDRs; Region: SDR_c; cd05233 994484007645 NAD(P) binding site [chemical binding]; other site 994484007646 active site 994484007647 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 994484007648 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 994484007649 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484007650 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484007651 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 994484007652 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 994484007653 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484007654 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 994484007655 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 994484007656 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 994484007657 homodimer interface [polypeptide binding]; other site 994484007658 NADP binding site [chemical binding]; other site 994484007659 substrate binding site [chemical binding]; other site 994484007660 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 994484007661 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484007662 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484007663 putative active site [active] 994484007664 putative substrate binding site [chemical binding]; other site 994484007665 putative cosubstrate binding site; other site 994484007666 catalytic site [active] 994484007667 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 994484007668 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 994484007669 non-specific DNA binding site [nucleotide binding]; other site 994484007670 salt bridge; other site 994484007671 sequence-specific DNA binding site [nucleotide binding]; other site 994484007672 Cupin domain; Region: Cupin_2; pfam07883 994484007673 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 994484007674 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484007675 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 994484007676 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 994484007677 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 994484007678 putative active site [active] 994484007679 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 994484007680 domain_subunit interface; other site 994484007681 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 994484007682 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 994484007683 active site 994484007684 FMN binding site [chemical binding]; other site 994484007685 substrate binding site [chemical binding]; other site 994484007686 3Fe-4S cluster binding site [ion binding]; other site 994484007687 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 994484007688 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 994484007689 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 994484007690 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 994484007691 homodimer interface [polypeptide binding]; other site 994484007692 NADP binding site [chemical binding]; other site 994484007693 substrate binding site [chemical binding]; other site 994484007694 Amino acid permease; Region: AA_permease_2; pfam13520 994484007695 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 994484007696 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 994484007697 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 994484007698 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 994484007699 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484007700 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 994484007701 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484007702 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 994484007703 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484007704 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484007705 putative active site [active] 994484007706 putative substrate binding site [chemical binding]; other site 994484007707 putative cosubstrate binding site; other site 994484007708 catalytic site [active] 994484007709 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 994484007710 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484007711 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 994484007712 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484007713 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 994484007714 FMN-binding pocket [chemical binding]; other site 994484007715 flavin binding motif; other site 994484007716 phosphate binding motif [ion binding]; other site 994484007717 beta-alpha-beta structure motif; other site 994484007718 NAD binding pocket [chemical binding]; other site 994484007719 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 994484007720 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 994484007721 catalytic loop [active] 994484007722 iron binding site [ion binding]; other site 994484007723 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 994484007724 Histidine kinase; Region: HisKA_3; pfam07730 994484007725 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 994484007726 ATP binding site [chemical binding]; other site 994484007727 Mg2+ binding site [ion binding]; other site 994484007728 G-X-G motif; other site 994484007729 transcriptional regulator NarL; Provisional; Region: PRK10651 994484007730 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 994484007731 active site 994484007732 phosphorylation site [posttranslational modification] 994484007733 intermolecular recognition site; other site 994484007734 dimerization interface [polypeptide binding]; other site 994484007735 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484007736 DNA binding residues [nucleotide binding] 994484007737 dimerization interface [polypeptide binding]; other site 994484007738 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 994484007739 PAS domain; Region: PAS_9; pfam13426 994484007740 putative active site [active] 994484007741 heme pocket [chemical binding]; other site 994484007742 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 994484007743 PAS fold; Region: PAS_3; pfam08447 994484007744 putative active site [active] 994484007745 heme pocket [chemical binding]; other site 994484007746 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484007747 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 994484007748 putative ligand binding site [chemical binding]; other site 994484007749 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 994484007750 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484007751 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484007752 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484007753 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484007754 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484007755 Walker A motif; other site 994484007756 ATP binding site [chemical binding]; other site 994484007757 Walker B motif; other site 994484007758 arginine finger; other site 994484007759 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484007760 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 994484007761 potassium uptake protein; Region: kup; TIGR00794 994484007762 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 994484007763 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 994484007764 oligomer interface [polypeptide binding]; other site 994484007765 Cl binding site [ion binding]; other site 994484007766 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 994484007767 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 994484007768 ATP-grasp domain; Region: ATP-grasp_4; cl17255 994484007769 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484007770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484007771 Coenzyme A binding pocket [chemical binding]; other site 994484007772 Peptidase_C39 like family; Region: DUF3335; pfam11814 994484007773 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 994484007774 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 994484007775 putative homodimer interface [polypeptide binding]; other site 994484007776 putative homotetramer interface [polypeptide binding]; other site 994484007777 putative metal binding site [ion binding]; other site 994484007778 putative homodimer-homodimer interface [polypeptide binding]; other site 994484007779 putative allosteric switch controlling residues; other site 994484007780 High-affinity nickel-transport protein; Region: NicO; cl00964 994484007781 High-affinity nickel-transport protein; Region: NicO; cl00964 994484007782 potential frameshift: common BLAST hit: gi|170724324|ref|YP_001752012.1| TraX family protein 994484007783 TraX protein; Region: TraX; cl05434 994484007784 TraX protein; Region: TraX; cl05434 994484007785 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007786 putative substrate translocation pore; other site 994484007787 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 994484007788 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 994484007789 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484007790 Zn2+ binding site [ion binding]; other site 994484007791 Mg2+ binding site [ion binding]; other site 994484007792 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484007793 dimer interface [polypeptide binding]; other site 994484007794 putative CheW interface [polypeptide binding]; other site 994484007795 Response regulator receiver domain; Region: Response_reg; pfam00072 994484007796 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 994484007797 active site 994484007798 phosphorylation site [posttranslational modification] 994484007799 intermolecular recognition site; other site 994484007800 dimerization interface [polypeptide binding]; other site 994484007801 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 994484007802 anti sigma factor interaction site; other site 994484007803 regulatory phosphorylation site [posttranslational modification]; other site 994484007804 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484007805 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 994484007806 putative binding surface; other site 994484007807 active site 994484007808 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484007809 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 994484007810 ATP binding site [chemical binding]; other site 994484007811 Mg2+ binding site [ion binding]; other site 994484007812 G-X-G motif; other site 994484007813 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 994484007814 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484007815 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 994484007816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484007817 dimer interface [polypeptide binding]; other site 994484007818 putative CheW interface [polypeptide binding]; other site 994484007819 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 994484007820 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 994484007821 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484007822 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 994484007823 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 994484007824 S-adenosylmethionine binding site [chemical binding]; other site 994484007825 CheD chemotactic sensory transduction; Region: CheD; cl00810 994484007826 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484007827 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 994484007828 active site 994484007829 phosphorylation site [posttranslational modification] 994484007830 intermolecular recognition site; other site 994484007831 dimerization interface [polypeptide binding]; other site 994484007832 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484007833 DNA binding residues [nucleotide binding] 994484007834 dimerization interface [polypeptide binding]; other site 994484007835 PAS domain S-box; Region: sensory_box; TIGR00229 994484007836 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 994484007837 putative active site [active] 994484007838 heme pocket [chemical binding]; other site 994484007839 PAS fold; Region: PAS_4; pfam08448 994484007840 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 994484007841 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484007842 putative active site [active] 994484007843 heme pocket [chemical binding]; other site 994484007844 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 994484007845 putative active site [active] 994484007846 heme pocket [chemical binding]; other site 994484007847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484007848 Histidine kinase; Region: HisKA_3; pfam07730 994484007849 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 994484007850 Mg2+ binding site [ion binding]; other site 994484007851 G-X-G motif; other site 994484007852 Cache domain; Region: Cache_1; pfam02743 994484007853 PAS fold; Region: PAS_3; pfam08447 994484007854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484007855 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484007856 dimer interface [polypeptide binding]; other site 994484007857 phosphorylation site [posttranslational modification] 994484007858 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 994484007859 ATP binding site [chemical binding]; other site 994484007860 Mg2+ binding site [ion binding]; other site 994484007861 G-X-G motif; other site 994484007862 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 994484007863 intermolecular recognition site; other site 994484007864 active site 994484007865 dimerization interface [polypeptide binding]; other site 994484007866 HDOD domain; Region: HDOD; pfam08668 994484007867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484007868 Zn2+ binding site [ion binding]; other site 994484007869 Mg2+ binding site [ion binding]; other site 994484007870 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484007871 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007872 putative substrate translocation pore; other site 994484007873 putative chaperone; Provisional; Region: PRK11678 994484007874 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 994484007875 nucleotide binding site [chemical binding]; other site 994484007876 putative NEF/HSP70 interaction site [polypeptide binding]; other site 994484007877 SBD interface [polypeptide binding]; other site 994484007878 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 994484007879 HSP70 interaction site [polypeptide binding]; other site 994484007880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 994484007881 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484007882 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 994484007883 dimer interface [polypeptide binding]; other site 994484007884 OPT oligopeptide transporter protein; Region: OPT; cl14607 994484007885 OPT oligopeptide transporter protein; Region: OPT; cl14607 994484007886 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484007887 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484007888 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 994484007889 HAMP domain; Region: HAMP; pfam00672 994484007890 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484007891 GAF domain; Region: GAF; pfam01590 994484007892 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484007893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484007894 metal binding site [ion binding]; metal-binding site 994484007895 active site 994484007896 I-site; other site 994484007897 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 994484007898 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484007899 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484007900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484007901 active site 994484007902 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484007903 acyl-CoA synthetase; Validated; Region: PRK08162 994484007904 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 994484007905 acyl-activating enzyme (AAE) consensus motif; other site 994484007906 putative active site [active] 994484007907 AMP binding site [chemical binding]; other site 994484007908 putative CoA binding site [chemical binding]; other site 994484007909 PAS domain S-box; Region: sensory_box; TIGR00229 994484007910 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 994484007911 putative active site [active] 994484007912 heme pocket [chemical binding]; other site 994484007913 PAS domain; Region: PAS; smart00091 994484007914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484007915 putative active site [active] 994484007916 heme pocket [chemical binding]; other site 994484007917 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484007918 dimer interface [polypeptide binding]; other site 994484007919 phosphorylation site [posttranslational modification] 994484007920 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 994484007921 ATP binding site [chemical binding]; other site 994484007922 G-X-G motif; other site 994484007923 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 994484007924 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 994484007925 active site 994484007926 phosphorylation site [posttranslational modification] 994484007927 intermolecular recognition site; other site 994484007928 dimerization interface [polypeptide binding]; other site 994484007929 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484007930 DNA binding residues [nucleotide binding] 994484007931 dimerization interface [polypeptide binding]; other site 994484007932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484007933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484007934 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 994484007935 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484007936 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484007937 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484007938 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484007939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484007940 Autoinducer binding domain; Region: Autoind_bind; pfam03472 994484007941 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484007942 DNA binding residues [nucleotide binding] 994484007943 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 994484007944 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 994484007945 glutamine binding [chemical binding]; other site 994484007946 catalytic triad [active] 994484007947 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 994484007948 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 994484007949 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 994484007950 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484007951 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 994484007952 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484007953 active site 994484007954 CoA binding site [chemical binding]; other site 994484007955 AMP binding site [chemical binding]; other site 994484007956 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 994484007957 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 994484007958 EamA-like transporter family; Region: EamA; pfam00892 994484007959 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484007960 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 994484007961 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 994484007962 dimer interface [polypeptide binding]; other site 994484007963 active site 994484007964 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484007965 substrate binding site [chemical binding]; other site 994484007966 catalytic residue [active] 994484007967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484007968 putative substrate translocation pore; other site 994484007969 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 994484007970 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 994484007971 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 994484007972 metal binding site [ion binding]; metal-binding site 994484007973 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 994484007974 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 994484007975 active site 994484007976 non-prolyl cis peptide bond; other site 994484007977 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484007978 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 994484007979 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 994484007980 Walker A/P-loop; other site 994484007981 ATP binding site [chemical binding]; other site 994484007982 Q-loop/lid; other site 994484007983 ABC transporter signature motif; other site 994484007984 Walker B; other site 994484007985 D-loop; other site 994484007986 H-loop/switch region; other site 994484007987 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484007988 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 994484007989 TM-ABC transporter signature motif; other site 994484007990 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 994484007991 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 994484007992 TM-ABC transporter signature motif; other site 994484007993 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 994484007994 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 994484007995 putative ligand binding site [chemical binding]; other site 994484007996 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 994484007997 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 994484007998 putative ligand binding site [chemical binding]; other site 994484007999 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484008000 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 994484008001 Walker A/P-loop; other site 994484008002 ATP binding site [chemical binding]; other site 994484008003 Q-loop/lid; other site 994484008004 ABC transporter signature motif; other site 994484008005 Walker B; other site 994484008006 D-loop; other site 994484008007 H-loop/switch region; other site 994484008008 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484008009 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484008010 active site 994484008011 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 994484008012 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 994484008013 active site 994484008014 dimer interface [polypeptide binding]; other site 994484008015 non-prolyl cis peptide bond; other site 994484008016 insertion regions; other site 994484008017 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 994484008018 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484008019 Walker A motif; other site 994484008020 ATP binding site [chemical binding]; other site 994484008021 Walker B motif; other site 994484008022 arginine finger; other site 994484008023 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484008024 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484008025 Flavin binding site [chemical binding]; other site 994484008026 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484008027 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 994484008028 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484008029 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 994484008030 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484008031 NmrA-like family; Region: NmrA; pfam05368 994484008032 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 994484008033 NADP binding site [chemical binding]; other site 994484008034 active site 994484008035 regulatory binding site [polypeptide binding]; other site 994484008036 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484008037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008038 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 994484008039 putative effector binding pocket; other site 994484008040 dimerization interface [polypeptide binding]; other site 994484008041 Predicted transcriptional regulators [Transcription]; Region: COG1733 994484008042 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 994484008043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484008044 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484008045 putative substrate translocation pore; other site 994484008046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008048 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 994484008049 putative dimerization interface [polypeptide binding]; other site 994484008050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 994484008051 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 994484008052 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484008053 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 994484008054 Citrate transporter; Region: CitMHS; pfam03600 994484008055 outer membrane porin, OprD family; Region: OprD; pfam03573 994484008056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484008057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484008058 Cache domain; Region: Cache_1; pfam02743 994484008059 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484008060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008061 DNA-binding site [nucleotide binding]; DNA binding site 994484008062 FCD domain; Region: FCD; pfam07729 994484008063 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 994484008064 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 994484008065 NAD(P) binding site [chemical binding]; other site 994484008066 catalytic residues [active] 994484008067 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 994484008068 SnoaL-like domain; Region: SnoaL_2; pfam12680 994484008069 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 994484008070 dimerization interface [polypeptide binding]; other site 994484008071 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484008072 dimer interface [polypeptide binding]; other site 994484008073 phosphorylation site [posttranslational modification] 994484008074 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 994484008075 ATP binding site [chemical binding]; other site 994484008076 Mg2+ binding site [ion binding]; other site 994484008077 G-X-G motif; other site 994484008078 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484008079 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 994484008080 active site 994484008081 phosphorylation site [posttranslational modification] 994484008082 intermolecular recognition site; other site 994484008083 dimerization interface [polypeptide binding]; other site 994484008084 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484008085 DNA binding site [nucleotide binding] 994484008086 MltA-interacting protein MipA; Region: MipA; cl01504 994484008087 Nitrate and nitrite sensing; Region: NIT; pfam08376 994484008088 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484008089 dimerization interface [polypeptide binding]; other site 994484008090 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484008091 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484008092 dimer interface [polypeptide binding]; other site 994484008093 putative CheW interface [polypeptide binding]; other site 994484008094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 994484008095 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484008096 D-galactonate transporter; Region: 2A0114; TIGR00893 994484008097 putative substrate translocation pore; other site 994484008098 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 strategy; Region: CHS_like; cd00831 994484008099 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 994484008100 malonyl-CoA binding site [chemical binding]; other site 994484008101 dimer interface [polypeptide binding]; other site 994484008102 active site 994484008103 product binding site; other site 994484008104 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 994484008105 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 994484008106 DUF35 OB-fold domain; Region: DUF35; pfam01796 994484008107 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 994484008108 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 994484008109 active site 994484008110 hypothetical protein; Provisional; Region: PRK04262 994484008111 "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...; Region: init_cond_enzymes; cd00827 994484008112 dimer interface [polypeptide binding]; other site 994484008113 active site 994484008114 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484008115 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484008116 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484008117 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484008118 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 994484008119 Predicted membrane protein [Function unknown]; Region: COG2259 994484008120 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 994484008121 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 994484008122 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 994484008123 putative dehydratase, YjhG/YagF family; Region: yjhG_yagF; TIGR03432 994484008124 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 994484008125 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484008126 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 994484008127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008128 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 994484008129 putative dimerization interface [polypeptide binding]; other site 994484008130 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484008131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484008132 putative substrate translocation pore; other site 994484008133 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 994484008134 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 994484008135 NAD binding site [chemical binding]; other site 994484008136 homotetramer interface [polypeptide binding]; other site 994484008137 homodimer interface [polypeptide binding]; other site 994484008138 active site 994484008139 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 994484008140 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484008141 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484008142 Protein export membrane protein; Region: SecD_SecF; cl14618 994484008143 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 994484008144 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484008145 Cache domain; Region: Cache_1; pfam02743 994484008146 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484008147 dimerization interface [polypeptide binding]; other site 994484008148 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484008149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484008150 dimer interface [polypeptide binding]; other site 994484008151 putative CheW interface [polypeptide binding]; other site 994484008152 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484008153 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008154 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 994484008155 NAD(P) binding site [chemical binding]; other site 994484008156 catalytic residues [active] 994484008157 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 994484008158 hypothetical protein; Provisional; Region: PRK07481 994484008159 inhibitor-cofactor binding pocket; inhibition site 994484008160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484008161 catalytic residue [active] 994484008162 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 994484008163 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484008164 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484008165 hypothetical protein; Validated; Region: PRK07586 994484008166 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484008167 PYR/PP interface [polypeptide binding]; other site 994484008168 dimer interface [polypeptide binding]; other site 994484008169 TPP binding site [chemical binding]; other site 994484008170 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 994484008171 TPP-binding site [chemical binding]; other site 994484008172 dimer interface [polypeptide binding]; other site 994484008173 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484008174 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484008175 NAD(P) binding site [chemical binding]; other site 994484008176 catalytic residues [active] 994484008177 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484008178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008179 NAD(P) binding site [chemical binding]; other site 994484008180 active site 994484008181 Ycf48-like protein; Provisional; Region: PRK13684 994484008182 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 994484008183 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484008184 active site 994484008185 metal binding site [ion binding]; metal-binding site 994484008186 Amino acid synthesis; Region: AA_synth; pfam06684 994484008187 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484008188 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484008189 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 994484008190 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484008191 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484008192 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484008193 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484008194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008195 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484008196 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008197 DNA-binding site [nucleotide binding]; DNA binding site 994484008198 FCD domain; Region: FCD; pfam07729 994484008199 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484008200 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484008201 substrate binding pocket [chemical binding]; other site 994484008202 membrane-bound complex binding site; other site 994484008203 hinge residues; other site 994484008204 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484008205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484008206 dimer interface [polypeptide binding]; other site 994484008207 conserved gate region; other site 994484008208 putative PBP binding loops; other site 994484008209 ABC-ATPase subunit interface; other site 994484008210 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484008211 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484008212 Walker A/P-loop; other site 994484008213 ATP binding site [chemical binding]; other site 994484008214 Q-loop/lid; other site 994484008215 ABC transporter signature motif; other site 994484008216 Walker B; other site 994484008217 D-loop; other site 994484008218 H-loop/switch region; other site 994484008219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484008220 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 994484008221 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 994484008222 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 994484008223 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484008224 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 994484008225 putative NAD(P) binding site [chemical binding]; other site 994484008226 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 994484008227 classical (c) SDRs; Region: SDR_c; cd05233 994484008228 NAD(P) binding site [chemical binding]; other site 994484008229 active site 994484008230 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484008231 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 994484008232 FMN binding site [chemical binding]; other site 994484008233 active site 994484008234 substrate binding site [chemical binding]; other site 994484008235 catalytic residue [active] 994484008236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484008237 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484008238 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484008239 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484008240 DNA binding site [nucleotide binding] 994484008241 domain linker motif; other site 994484008242 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 994484008243 putative dimerization interface [polypeptide binding]; other site 994484008244 putative ligand binding site [chemical binding]; other site 994484008245 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 994484008246 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 994484008247 substrate binding [chemical binding]; other site 994484008248 active site 994484008249 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 994484008250 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484008251 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 994484008252 Walker A/P-loop; other site 994484008253 ATP binding site [chemical binding]; other site 994484008254 Q-loop/lid; other site 994484008255 ABC transporter signature motif; other site 994484008256 Walker B; other site 994484008257 D-loop; other site 994484008258 H-loop/switch region; other site 994484008259 TOBE domain; Region: TOBE_2; pfam08402 994484008260 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484008261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484008262 dimer interface [polypeptide binding]; other site 994484008263 putative PBP binding loops; other site 994484008264 ABC-ATPase subunit interface; other site 994484008265 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484008266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484008267 dimer interface [polypeptide binding]; other site 994484008268 conserved gate region; other site 994484008269 putative PBP binding loops; other site 994484008270 ABC-ATPase subunit interface; other site 994484008271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484008272 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 994484008273 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 994484008274 trimer interface; other site 994484008275 sugar binding site [chemical binding]; other site 994484008276 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 994484008277 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 994484008278 putative DNA binding site [nucleotide binding]; other site 994484008279 putative Zn2+ binding site [ion binding]; other site 994484008280 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484008281 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484008282 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 994484008283 substrate binding site [chemical binding]; other site 994484008284 ATP binding site [chemical binding]; other site 994484008285 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 994484008286 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 994484008287 putative active site pocket [active] 994484008288 putative metal binding site [ion binding]; other site 994484008289 putative oxidoreductase; Provisional; Region: PRK10083 994484008290 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 994484008291 putative NAD(P) binding site [chemical binding]; other site 994484008292 catalytic Zn binding site [ion binding]; other site 994484008293 structural Zn binding site [ion binding]; other site 994484008294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484008295 D-galactonate transporter; Region: 2A0114; TIGR00893 994484008296 putative substrate translocation pore; other site 994484008297 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 994484008298 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 994484008299 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 994484008300 mannonate dehydratase; Region: uxuA; TIGR00695 994484008301 mannonate dehydratase; Provisional; Region: PRK03906 994484008302 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484008303 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008304 DNA-binding site [nucleotide binding]; DNA binding site 994484008305 FCD domain; Region: FCD; pfam07729 994484008306 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 994484008307 galactarate dehydratase; Region: galactar-dH20; TIGR03248 994484008308 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 994484008309 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 994484008310 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 994484008311 putative NAD(P) binding site [chemical binding]; other site 994484008312 catalytic Zn binding site [ion binding]; other site 994484008313 structural Zn binding site [ion binding]; other site 994484008314 Trehalase; Region: Trehalase; cl17346 994484008315 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 994484008316 PAS domain; Region: PAS; smart00091 994484008317 PAS fold; Region: PAS; pfam00989 994484008318 putative active site [active] 994484008319 heme pocket [chemical binding]; other site 994484008320 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484008321 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484008322 metal binding site [ion binding]; metal-binding site 994484008323 active site 994484008324 I-site; other site 994484008325 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 994484008326 Response regulator receiver domain; Region: Response_reg; pfam00072 994484008327 active site 994484008328 phosphorylation site [posttranslational modification] 994484008329 intermolecular recognition site; other site 994484008330 dimerization interface [polypeptide binding]; other site 994484008331 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 994484008332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484008333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484008334 metal binding site [ion binding]; metal-binding site 994484008335 active site 994484008336 I-site; other site 994484008337 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 994484008338 PBP superfamily domain; Region: PBP_like_2; cl17296 994484008339 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 994484008340 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 994484008341 ATP binding site [chemical binding]; other site 994484008342 Mg2+ binding site [ion binding]; other site 994484008343 G-X-G motif; other site 994484008344 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 994484008345 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 994484008346 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 994484008347 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 994484008348 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 994484008349 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 994484008350 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 994484008351 Walker A/P-loop; other site 994484008352 ATP binding site [chemical binding]; other site 994484008353 Q-loop/lid; other site 994484008354 ABC transporter signature motif; other site 994484008355 Walker B; other site 994484008356 D-loop; other site 994484008357 H-loop/switch region; other site 994484008358 Condensation domain; Region: Condensation; pfam00668 994484008359 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008360 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484008361 acyl-activating enzyme (AAE) consensus motif; other site 994484008362 AMP binding site [chemical binding]; other site 994484008363 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008364 Condensation domain; Region: Condensation; pfam00668 994484008365 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008366 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008367 acyl-activating enzyme (AAE) consensus motif; other site 994484008368 AMP binding site [chemical binding]; other site 994484008369 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008370 Condensation domain; Region: Condensation; pfam00668 994484008371 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484008372 Condensation domain; Region: Condensation; pfam00668 994484008373 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008374 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008375 acyl-activating enzyme (AAE) consensus motif; other site 994484008376 AMP binding site [chemical binding]; other site 994484008377 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008378 Condensation domain; Region: Condensation; pfam00668 994484008379 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008380 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484008381 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 994484008382 Condensation domain; Region: Condensation; pfam00668 994484008383 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008384 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484008385 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008386 acyl-activating enzyme (AAE) consensus motif; other site 994484008387 AMP binding site [chemical binding]; other site 994484008388 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008389 Condensation domain; Region: Condensation; pfam00668 994484008390 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008391 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484008392 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008393 acyl-activating enzyme (AAE) consensus motif; other site 994484008394 AMP binding site [chemical binding]; other site 994484008395 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008396 Condensation domain; Region: Condensation; pfam00668 994484008397 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008398 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484008399 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008400 acyl-activating enzyme (AAE) consensus motif; other site 994484008401 AMP binding site [chemical binding]; other site 994484008402 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008403 Condensation domain; Region: Condensation; pfam00668 994484008404 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008405 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484008406 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008407 acyl-activating enzyme (AAE) consensus motif; other site 994484008408 AMP binding site [chemical binding]; other site 994484008409 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008410 Condensation domain; Region: Condensation; pfam00668 994484008411 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484008412 Condensation domain; Region: Condensation; pfam00668 994484008413 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484008414 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484008415 acyl-activating enzyme (AAE) consensus motif; other site 994484008416 AMP binding site [chemical binding]; other site 994484008417 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008418 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 994484008419 acyl-CoA synthetase; Validated; Region: PRK05850 994484008420 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 994484008421 acyl-activating enzyme (AAE) consensus motif; other site 994484008422 active site 994484008423 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008424 Condensation domain; Region: Condensation; pfam00668 994484008425 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484008426 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484008427 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 994484008428 active site 994484008429 iron coordination sites [ion binding]; other site 994484008430 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484008431 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 994484008432 N-terminal plug; other site 994484008433 ligand-binding site [chemical binding]; other site 994484008434 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 994484008435 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 994484008436 inhibitor-cofactor binding pocket; inhibition site 994484008437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484008438 catalytic residue [active] 994484008439 Uncharacterized conserved protein [Function unknown]; Region: COG3287 994484008440 FIST N domain; Region: FIST; smart00897 994484008441 FIST C domain; Region: FIST_C; pfam10442 994484008442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484008443 dimer interface [polypeptide binding]; other site 994484008444 putative CheW interface [polypeptide binding]; other site 994484008445 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 994484008446 binding surface 994484008447 TPR motif; other site 994484008448 Tetratricopeptide repeat; Region: TPR_12; pfam13424 994484008449 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 994484008450 binding surface 994484008451 TPR motif; other site 994484008452 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484008453 RHS Repeat; Region: RHS_repeat; pfam05593 994484008454 RHS Repeat; Region: RHS_repeat; pfam05593 994484008455 RHS Repeat; Region: RHS_repeat; pfam05593 994484008456 RHS Repeat; Region: RHS_repeat; pfam05593 994484008457 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484008458 RHS Repeat; Region: RHS_repeat; pfam05593 994484008459 RHS Repeat; Region: RHS_repeat; pfam05593 994484008460 RHS Repeat; Region: RHS_repeat; pfam05593 994484008461 RHS Repeat; Region: RHS_repeat; pfam05593 994484008462 RHS Repeat; Region: RHS_repeat; pfam05593 994484008463 RHS Repeat; Region: RHS_repeat; pfam05593 994484008464 RHS Repeat; Region: RHS_repeat; pfam05593 994484008465 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484008466 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484008467 RHS Repeat; Region: RHS_repeat; pfam05593 994484008468 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 994484008469 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 994484008470 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 994484008471 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 994484008472 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 994484008473 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 994484008474 FHIPEP family; Region: FHIPEP; pfam00771 994484008475 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 994484008476 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 994484008477 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 994484008478 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 994484008479 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 994484008480 SAF-like; Region: SAF_2; pfam13144 994484008481 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 994484008482 Flagellar L-ring protein; Region: FlgH; cl17277 994484008483 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 994484008484 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 994484008485 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 994484008486 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 994484008487 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 994484008488 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 994484008489 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 994484008490 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 994484008491 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 994484008492 Flagellar assembly protein FliH; Region: FliH; pfam02108 994484008493 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 994484008494 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484008495 Walker A motif; other site 994484008496 ATP binding site [chemical binding]; other site 994484008497 Walker B motif; other site 994484008498 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 994484008499 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 994484008500 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 994484008501 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 994484008502 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 994484008503 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 994484008504 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 994484008505 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 994484008506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484008507 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484008508 DNA binding residues [nucleotide binding] 994484008509 hypothetical protein; Provisional; Region: PRK06184 994484008510 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484008511 putative S-transferase; Provisional; Region: PRK11752 994484008512 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 994484008513 C-terminal domain interface [polypeptide binding]; other site 994484008514 GSH binding site (G-site) [chemical binding]; other site 994484008515 dimer interface [polypeptide binding]; other site 994484008516 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 994484008517 dimer interface [polypeptide binding]; other site 994484008518 N-terminal domain interface [polypeptide binding]; other site 994484008519 active site 994484008520 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 994484008521 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484008522 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484008523 metal binding site [ion binding]; metal-binding site 994484008524 active site 994484008525 I-site; other site 994484008526 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484008527 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484008528 substrate binding pocket [chemical binding]; other site 994484008529 membrane-bound complex binding site; other site 994484008530 hinge residues; other site 994484008531 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484008532 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484008533 active site 994484008534 catalytic tetrad [active] 994484008535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008537 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 994484008538 putative effector binding pocket; other site 994484008539 putative dimerization interface [polypeptide binding]; other site 994484008540 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 994484008541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484008542 dimer interface [polypeptide binding]; other site 994484008543 conserved gate region; other site 994484008544 putative PBP binding loops; other site 994484008545 ABC-ATPase subunit interface; other site 994484008546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484008547 dimer interface [polypeptide binding]; other site 994484008548 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 994484008549 conserved gate region; other site 994484008550 putative PBP binding loops; other site 994484008551 ABC-ATPase subunit interface; other site 994484008552 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 994484008553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484008554 Walker A/P-loop; other site 994484008555 ATP binding site [chemical binding]; other site 994484008556 Q-loop/lid; other site 994484008557 ABC transporter signature motif; other site 994484008558 Walker B; other site 994484008559 D-loop; other site 994484008560 H-loop/switch region; other site 994484008561 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 994484008562 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484008563 substrate binding pocket [chemical binding]; other site 994484008564 membrane-bound complex binding site; other site 994484008565 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 994484008566 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 994484008567 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 994484008568 exopolyphosphatase; Region: exo_poly_only; TIGR03706 994484008569 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 994484008570 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 994484008571 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 994484008572 dimer interface [polypeptide binding]; other site 994484008573 active site 994484008574 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484008575 catalytic residues [active] 994484008576 substrate binding site [chemical binding]; other site 994484008577 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 994484008578 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484008579 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 994484008580 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 994484008581 Response regulator receiver domain; Region: Response_reg; pfam00072 994484008582 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 994484008583 active site 994484008584 phosphorylation site [posttranslational modification] 994484008585 intermolecular recognition site; other site 994484008586 dimerization interface [polypeptide binding]; other site 994484008587 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484008588 DNA binding residues [nucleotide binding] 994484008589 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 994484008590 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 994484008591 hydrophobic ligand binding site; other site 994484008592 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 994484008593 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 994484008594 active site 994484008595 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 994484008596 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 994484008597 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484008598 Phosphopantetheine attachment site; Region: PP-binding; cl09936 994484008599 hypothetical protein; Provisional; Region: PRK06184 994484008600 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484008601 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 994484008602 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484008603 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484008604 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 994484008605 acyl-activating enzyme (AAE) consensus motif; other site 994484008606 active site 994484008607 AMP binding site [chemical binding]; other site 994484008608 CoA binding site [chemical binding]; other site 994484008609 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 994484008610 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 994484008611 putative NADP binding site [chemical binding]; other site 994484008612 putative substrate binding site [chemical binding]; other site 994484008613 active site 994484008614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484008615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484008616 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484008617 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 994484008618 putative DNA binding site [nucleotide binding]; other site 994484008619 putative Zn2+ binding site [ion binding]; other site 994484008620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484008621 Coenzyme A binding pocket [chemical binding]; other site 994484008622 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 994484008623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008624 DNA-binding site [nucleotide binding]; DNA binding site 994484008625 UTRA domain; Region: UTRA; pfam07702 994484008626 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484008627 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 994484008628 Walker A/P-loop; other site 994484008629 ATP binding site [chemical binding]; other site 994484008630 Q-loop/lid; other site 994484008631 ABC transporter signature motif; other site 994484008632 Walker B; other site 994484008633 D-loop; other site 994484008634 H-loop/switch region; other site 994484008635 NMT1-like family; Region: NMT1_2; pfam13379 994484008636 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484008637 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484008638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484008639 dimer interface [polypeptide binding]; other site 994484008640 conserved gate region; other site 994484008641 putative PBP binding loops; other site 994484008642 ABC-ATPase subunit interface; other site 994484008643 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 994484008644 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 994484008645 classical (c) SDRs; Region: SDR_c; cd05233 994484008646 NAD(P) binding site [chemical binding]; other site 994484008647 active site 994484008648 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 994484008649 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 994484008650 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484008651 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 994484008652 TatD related DNase; Region: TatD_DNase; pfam01026 994484008653 active site 994484008654 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 994484008655 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 994484008656 active site 994484008657 NAD binding site [chemical binding]; other site 994484008658 metal binding site [ion binding]; metal-binding site 994484008659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008660 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484008661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008662 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 994484008663 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 994484008664 tetramer interface [polypeptide binding]; other site 994484008665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484008666 catalytic residue [active] 994484008667 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484008668 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484008669 membrane-bound complex binding site; other site 994484008670 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 994484008671 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484008672 NAD(P) binding site [chemical binding]; other site 994484008673 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484008674 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 994484008675 C-terminal domain interface [polypeptide binding]; other site 994484008676 GSH binding site (G-site) [chemical binding]; other site 994484008677 dimer interface [polypeptide binding]; other site 994484008678 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 994484008679 dimer interface [polypeptide binding]; other site 994484008680 N-terminal domain interface [polypeptide binding]; other site 994484008681 substrate binding pocket (H-site) [chemical binding]; other site 994484008682 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484008683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008684 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484008685 dimerization interface [polypeptide binding]; other site 994484008686 substrate binding pocket [chemical binding]; other site 994484008687 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 994484008688 PAS domain; Region: PAS_9; pfam13426 994484008689 putative active site [active] 994484008690 heme pocket [chemical binding]; other site 994484008691 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 994484008692 PAS domain; Region: PAS_9; pfam13426 994484008693 putative active site [active] 994484008694 heme pocket [chemical binding]; other site 994484008695 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484008696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484008697 dimer interface [polypeptide binding]; other site 994484008698 putative CheW interface [polypeptide binding]; other site 994484008699 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484008700 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484008701 dimer interface [polypeptide binding]; other site 994484008702 phosphorylation site [posttranslational modification] 994484008703 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 994484008704 ATP binding site [chemical binding]; other site 994484008705 Mg2+ binding site [ion binding]; other site 994484008706 G-X-G motif; other site 994484008707 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484008708 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 994484008709 active site 994484008710 phosphorylation site [posttranslational modification] 994484008711 intermolecular recognition site; other site 994484008712 dimerization interface [polypeptide binding]; other site 994484008713 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484008714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 994484008715 active site 994484008716 phosphorylation site [posttranslational modification] 994484008717 intermolecular recognition site; other site 994484008718 dimerization interface [polypeptide binding]; other site 994484008719 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484008720 DNA binding residues [nucleotide binding] 994484008721 dimerization interface [polypeptide binding]; other site 994484008722 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484008723 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484008724 dimer interface [polypeptide binding]; other site 994484008725 phosphorylation site [posttranslational modification] 994484008726 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 994484008727 ATP binding site [chemical binding]; other site 994484008728 Mg2+ binding site [ion binding]; other site 994484008729 G-X-G motif; other site 994484008730 Response regulator receiver domain; Region: Response_reg; pfam00072 994484008731 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 994484008732 active site 994484008733 phosphorylation site [posttranslational modification] 994484008734 intermolecular recognition site; other site 994484008735 dimerization interface [polypeptide binding]; other site 994484008736 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484008737 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 994484008738 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484008739 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 994484008740 FAD binding pocket [chemical binding]; other site 994484008741 FAD binding motif [chemical binding]; other site 994484008742 phosphate binding motif [ion binding]; other site 994484008743 beta-alpha-beta structure motif; other site 994484008744 NAD binding pocket [chemical binding]; other site 994484008745 Heme binding pocket [chemical binding]; other site 994484008746 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 994484008747 catalytic loop [active] 994484008748 iron binding site [ion binding]; other site 994484008749 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484008750 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 994484008751 putative C-terminal domain interface [polypeptide binding]; other site 994484008752 putative GSH binding site (G-site) [chemical binding]; other site 994484008753 putative dimer interface [polypeptide binding]; other site 994484008754 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 994484008755 putative N-terminal domain interface [polypeptide binding]; other site 994484008756 putative dimer interface [polypeptide binding]; other site 994484008757 putative substrate binding pocket (H-site) [chemical binding]; other site 994484008758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008760 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 994484008761 putative effector binding pocket; other site 994484008762 putative dimerization interface [polypeptide binding]; other site 994484008763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008765 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 994484008766 dimerization interface [polypeptide binding]; other site 994484008767 Cupin; Region: Cupin_6; pfam12852 994484008768 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484008769 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008770 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 994484008771 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 994484008772 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484008773 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484008774 EamA-like transporter family; Region: EamA; pfam00892 994484008775 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008776 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008777 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 994484008778 dimerization interface [polypeptide binding]; other site 994484008779 amidase; Validated; Region: PRK06565 994484008780 Amidase; Region: Amidase; cl11426 994484008781 Thermostable hemolysin; Region: T_hemolysin; pfam12261 994484008782 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 994484008783 AMP-binding enzyme; Region: AMP-binding; pfam00501 994484008784 acyl-activating enzyme (AAE) consensus motif; other site 994484008785 putative AMP binding site [chemical binding]; other site 994484008786 putative active site [active] 994484008787 putative CoA binding site [chemical binding]; other site 994484008788 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 994484008789 heme binding pocket [chemical binding]; other site 994484008790 heme ligand [chemical binding]; other site 994484008791 short chain dehydrogenase; Provisional; Region: PRK09072 994484008792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484008793 NAD(P) binding site [chemical binding]; other site 994484008794 active site 994484008795 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 994484008796 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 994484008797 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 994484008798 active site 994484008799 phosphorylation site [posttranslational modification] 994484008800 intermolecular recognition site; other site 994484008801 dimerization interface [polypeptide binding]; other site 994484008802 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484008803 DNA binding site [nucleotide binding] 994484008804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484008805 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 994484008806 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484008807 dimer interface [polypeptide binding]; other site 994484008808 phosphorylation site [posttranslational modification] 994484008809 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 994484008810 ATP binding site [chemical binding]; other site 994484008811 Mg2+ binding site [ion binding]; other site 994484008812 G-X-G motif; other site 994484008813 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484008814 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 994484008815 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 994484008816 Predicted transporter component [General function prediction only]; Region: COG2391 994484008817 Sulphur transport; Region: Sulf_transp; pfam04143 994484008818 Predicted transporter component [General function prediction only]; Region: COG2391 994484008819 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 994484008820 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484008821 Putative phosphatase (DUF442); Region: DUF442; cl17385 994484008822 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 994484008823 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 994484008824 PAS fold; Region: PAS_4; pfam08448 994484008825 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 994484008826 putative active site [active] 994484008827 heme pocket [chemical binding]; other site 994484008828 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484008829 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484008830 Walker A motif; other site 994484008831 ATP binding site [chemical binding]; other site 994484008832 Walker B motif; other site 994484008833 arginine finger; other site 994484008834 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484008835 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 994484008836 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 994484008837 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 994484008838 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 994484008839 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 994484008840 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 994484008841 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 994484008842 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 994484008843 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484008844 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 994484008845 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 994484008846 motif II; other site 994484008847 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 994484008848 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 994484008849 Ligand Binding Site [chemical binding]; other site 994484008850 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 994484008851 Ligand Binding Site [chemical binding]; other site 994484008852 Predicted membrane protein [Function unknown]; Region: COG3174 994484008853 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 994484008854 universal stress protein UspE; Provisional; Region: PRK11175 994484008855 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 994484008856 Ligand Binding Site [chemical binding]; other site 994484008857 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 994484008858 Ligand Binding Site [chemical binding]; other site 994484008859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484008860 Coenzyme A binding pocket [chemical binding]; other site 994484008861 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 994484008862 Ligand Binding Site [chemical binding]; other site 994484008863 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 994484008864 Ligand Binding Site [chemical binding]; other site 994484008865 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484008866 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 994484008867 putative NAD(P) binding site [chemical binding]; other site 994484008868 putative substrate binding site [chemical binding]; other site 994484008869 catalytic Zn binding site [ion binding]; other site 994484008870 structural Zn binding site [ion binding]; other site 994484008871 putative phosphoketolase; Provisional; Region: PRK05261 994484008872 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 994484008873 TPP-binding site; other site 994484008874 XFP C-terminal domain; Region: XFP_C; pfam09363 994484008875 universal stress protein UspE; Provisional; Region: PRK11175 994484008876 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 994484008877 Ligand Binding Site [chemical binding]; other site 994484008878 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 994484008879 Ligand Binding Site [chemical binding]; other site 994484008880 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 994484008881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484008882 Beta-Casp domain; Region: Beta-Casp; smart01027 994484008883 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 994484008884 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 994484008885 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 994484008886 putative dimer interface [polypeptide binding]; other site 994484008887 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 994484008888 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 994484008889 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 994484008890 ligand binding site [chemical binding]; other site 994484008891 flexible hinge region; other site 994484008892 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 994484008893 putative switch regulator; other site 994484008894 non-specific DNA interactions [nucleotide binding]; other site 994484008895 DNA binding site [nucleotide binding] 994484008896 sequence specific DNA binding site [nucleotide binding]; other site 994484008897 putative cAMP binding site [chemical binding]; other site 994484008898 FtsH Extracellular; Region: FtsH_ext; pfam06480 994484008899 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 994484008900 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484008901 Walker A motif; other site 994484008902 ATP binding site [chemical binding]; other site 994484008903 Walker B motif; other site 994484008904 arginine finger; other site 994484008905 Peptidase family M41; Region: Peptidase_M41; pfam01434 994484008906 Protein of unknown function (DUF3359); Region: DUF3359; pfam11839 994484008907 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 994484008908 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484008909 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008910 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484008911 dimerization interface [polypeptide binding]; other site 994484008912 substrate binding pocket [chemical binding]; other site 994484008913 outer membrane porin, OprD family; Region: OprD; pfam03573 994484008914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008915 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484008916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484008917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 994484008918 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 994484008919 ApbE family; Region: ApbE; pfam02424 994484008920 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 994484008921 Flavodoxin; Region: Flavodoxin_1; pfam00258 994484008922 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 994484008923 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 994484008924 FAD binding pocket [chemical binding]; other site 994484008925 FAD binding motif [chemical binding]; other site 994484008926 catalytic residues [active] 994484008927 NAD binding pocket [chemical binding]; other site 994484008928 phosphate binding motif [ion binding]; other site 994484008929 beta-alpha-beta structure motif; other site 994484008930 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 994484008931 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 994484008932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484008933 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 994484008934 active site 994484008935 phosphorylation site [posttranslational modification] 994484008936 intermolecular recognition site; other site 994484008937 dimerization interface [polypeptide binding]; other site 994484008938 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484008939 DNA binding site [nucleotide binding] 994484008940 sensor protein QseC; Provisional; Region: PRK10337 994484008941 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484008942 dimer interface [polypeptide binding]; other site 994484008943 phosphorylation site [posttranslational modification] 994484008944 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 994484008945 ATP binding site [chemical binding]; other site 994484008946 Mg2+ binding site [ion binding]; other site 994484008947 G-X-G motif; other site 994484008948 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 994484008949 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484008950 DNA-binding site [nucleotide binding]; DNA binding site 994484008951 UTRA domain; Region: UTRA; pfam07702 994484008952 benzoate transport; Region: 2A0115; TIGR00895 994484008953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484008954 putative substrate translocation pore; other site 994484008955 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 994484008956 active site 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 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484008959 putative active site [active] 994484008960 heme pocket [chemical binding]; other site 994484008961 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 994484008962 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484008963 putative active site [active] 994484008964 heme pocket [chemical binding]; other site 994484008965 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484008966 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 994484008967 putative active site [active] 994484008968 heme pocket [chemical binding]; other site 994484008969 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 994484008970 putative active site [active] 994484008971 heme pocket [chemical binding]; other site 994484008972 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 994484008973 HWE histidine kinase; Region: HWE_HK; pfam07536 994484008974 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484008975 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 994484008976 active site 994484008977 phosphorylation site [posttranslational modification] 994484008978 intermolecular recognition site; other site 994484008979 dimerization interface [polypeptide binding]; other site 994484008980 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 994484008981 HIT family signature motif; other site 994484008982 catalytic residue [active] 994484008983 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 994484008984 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484008985 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 994484008986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484008987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484008988 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 994484008989 putative effector binding pocket; other site 994484008990 putative dimerization interface [polypeptide binding]; other site 994484008991 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 994484008992 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 994484008993 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484008994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484008995 Walker A/P-loop; other site 994484008996 ATP binding site [chemical binding]; other site 994484008997 Q-loop/lid; other site 994484008998 ABC transporter signature motif; other site 994484008999 Walker B; other site 994484009000 D-loop; other site 994484009001 H-loop/switch region; other site 994484009002 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 994484009003 dimerization interface [polypeptide binding]; other site 994484009004 putative DNA binding site [nucleotide binding]; other site 994484009005 putative Zn2+ binding site [ion binding]; other site 994484009006 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 994484009007 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484009008 putative NAD(P) binding site [chemical binding]; other site 994484009009 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 994484009010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009012 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 994484009013 dimerization interface [polypeptide binding]; other site 994484009014 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 994484009015 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 994484009016 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484009017 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484009018 DNA binding residues [nucleotide binding] 994484009019 dimerization interface [polypeptide binding]; other site 994484009020 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 994484009021 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484009022 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484009023 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 994484009024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484009025 Coenzyme A binding pocket [chemical binding]; other site 994484009026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009028 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 994484009029 putative effector binding pocket; other site 994484009030 dimerization interface [polypeptide binding]; other site 994484009031 Isochorismatase family; Region: Isochorismatase; pfam00857 994484009032 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 994484009033 catalytic triad [active] 994484009034 dimer interface [polypeptide binding]; other site 994484009035 conserved cis-peptide bond; other site 994484009036 RibD C-terminal domain; Region: RibD_C; cl17279 994484009037 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 994484009038 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 994484009039 S-adenosylmethionine binding site [chemical binding]; other site 994484009040 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 994484009041 active site 994484009042 catalytic residues [active] 994484009043 Protein of unknown function (DUF998); Region: DUF998; pfam06197 994484009044 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 994484009045 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484009046 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 994484009047 S-adenosylmethionine binding site [chemical binding]; other site 994484009048 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 994484009049 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 994484009050 FAD binding domain; Region: FAD_binding_4; pfam01565 994484009051 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 994484009052 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 994484009053 non-specific DNA binding site [nucleotide binding]; other site 994484009054 salt bridge; other site 994484009055 sequence-specific DNA binding site [nucleotide binding]; other site 994484009056 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 994484009057 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484009058 Uncharacterized conserved protein [Function unknown]; Region: COG4925 994484009059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009061 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 994484009062 putative effector binding pocket; other site 994484009063 putative dimerization interface [polypeptide binding]; other site 994484009064 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 994484009065 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 994484009066 putative dimer interface [polypeptide binding]; other site 994484009067 [2Fe-2S] cluster binding site [ion binding]; other site 994484009068 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 994484009069 putative dimer interface [polypeptide binding]; other site 994484009070 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 994484009071 SLBB domain; Region: SLBB; pfam10531 994484009072 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 994484009073 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 994484009074 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 994484009075 catalytic loop [active] 994484009076 iron binding site [ion binding]; other site 994484009077 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 994484009078 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 994484009079 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 994484009080 [4Fe-4S] binding site [ion binding]; other site 994484009081 molybdopterin cofactor binding site; other site 994484009082 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 994484009083 molybdopterin cofactor binding site; other site 994484009084 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 994484009085 Inclusion body protein; Region: PixA; pfam12306 994484009086 Chorismate mutase type II; Region: CM_2; cl00693 994484009087 Isochorismatase family; Region: Isochorismatase; pfam00857 994484009088 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 994484009089 catalytic triad [active] 994484009090 conserved cis-peptide bond; other site 994484009091 Epoxide hydrolase N terminus; Region: EHN; pfam06441 994484009092 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484009093 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484009094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484009095 Coenzyme A binding pocket [chemical binding]; other site 994484009096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484009097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009098 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484009099 dimerization interface [polypeptide binding]; other site 994484009100 substrate binding pocket [chemical binding]; other site 994484009101 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484009102 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 994484009103 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 994484009104 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484009105 TM-ABC transporter signature motif; other site 994484009106 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 994484009107 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 994484009108 Walker A/P-loop; other site 994484009109 ATP binding site [chemical binding]; other site 994484009110 Q-loop/lid; other site 994484009111 ABC transporter signature motif; other site 994484009112 Walker B; other site 994484009113 D-loop; other site 994484009114 H-loop/switch region; other site 994484009115 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 994484009116 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 994484009117 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 994484009118 putative ligand binding site [chemical binding]; other site 994484009119 xylose isomerase; Provisional; Region: PRK05474 994484009120 xylose isomerase; Region: xylose_isom_A; TIGR02630 994484009121 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 994484009122 putative dimerization interface [polypeptide binding]; other site 994484009123 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484009124 putative ligand binding site [chemical binding]; other site 994484009125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009127 Uncharacterized conserved protein [Function unknown]; Region: COG3268 994484009128 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 994484009129 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 994484009130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009132 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 994484009133 putative effector binding pocket; other site 994484009134 putative dimerization interface [polypeptide binding]; other site 994484009135 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484009136 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484009137 active site 994484009138 catalytic tetrad [active] 994484009139 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 994484009140 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 994484009141 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 994484009142 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484009143 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484009144 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484009145 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 994484009146 Family of unknown function (DUF633); Region: DUF633; pfam04816 994484009147 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 994484009148 CAAX protease self-immunity; Region: Abi; pfam02517 994484009149 hypothetical protein; Provisional; Region: PRK08317 994484009150 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 994484009151 S-adenosylmethionine binding site [chemical binding]; other site 994484009152 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 994484009153 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 994484009154 Flavin binding site [chemical binding]; other site 994484009155 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 994484009156 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484009157 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 994484009158 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 994484009159 active site 994484009160 dimer interface [polypeptide binding]; other site 994484009161 non-prolyl cis peptide bond; other site 994484009162 insertion regions; other site 994484009163 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484009164 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484009165 CoA binding site [chemical binding]; other site 994484009166 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 994484009167 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 994484009168 Walker A/P-loop; other site 994484009169 ATP binding site [chemical binding]; other site 994484009170 Q-loop/lid; other site 994484009171 ABC transporter signature motif; other site 994484009172 Walker B; other site 994484009173 D-loop; other site 994484009174 H-loop/switch region; other site 994484009175 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 994484009176 TM-ABC transporter signature motif; other site 994484009177 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 994484009178 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 994484009179 TM-ABC transporter signature motif; other site 994484009180 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 994484009181 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 994484009182 putative ligand binding site [chemical binding]; other site 994484009183 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 994484009184 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 994484009185 Walker A/P-loop; other site 994484009186 ATP binding site [chemical binding]; other site 994484009187 Q-loop/lid; other site 994484009188 ABC transporter signature motif; other site 994484009189 Walker B; other site 994484009190 D-loop; other site 994484009191 H-loop/switch region; other site 994484009192 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 994484009193 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484009194 Walker A motif; other site 994484009195 ATP binding site [chemical binding]; other site 994484009196 Walker B motif; other site 994484009197 arginine finger; other site 994484009198 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 994484009199 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 994484009200 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484009201 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484009202 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 994484009203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009204 putative substrate translocation pore; other site 994484009205 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484009206 Response regulator receiver domain; Region: Response_reg; pfam00072 994484009207 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 994484009208 active site 994484009209 phosphorylation site [posttranslational modification] 994484009210 intermolecular recognition site; other site 994484009211 dimerization interface [polypeptide binding]; other site 994484009212 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 994484009213 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 994484009214 active site 994484009215 ATP binding site [chemical binding]; other site 994484009216 substrate binding site [chemical binding]; other site 994484009217 activation loop (A-loop); other site 994484009218 AAA ATPase domain; Region: AAA_16; pfam13191 994484009219 Predicted ATPase [General function prediction only]; Region: COG3899 994484009220 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484009221 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 994484009222 PAS domain S-box; Region: sensory_box; TIGR00229 994484009223 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 994484009224 putative active site [active] 994484009225 heme pocket [chemical binding]; other site 994484009226 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 994484009227 ATP binding site [chemical binding]; other site 994484009228 Mg2+ binding site [ion binding]; other site 994484009229 G-X-G motif; other site 994484009230 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 994484009231 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 994484009232 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 994484009233 active site 994484009234 phosphorylation site [posttranslational modification] 994484009235 intermolecular recognition site; other site 994484009236 dimerization interface [polypeptide binding]; other site 994484009237 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484009238 DNA binding residues [nucleotide binding] 994484009239 dimerization interface [polypeptide binding]; other site 994484009240 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484009241 Beta-lactamase; Region: Beta-lactamase; pfam00144 994484009242 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 994484009243 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 994484009244 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484009245 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484009246 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484009247 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 994484009248 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 994484009249 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 994484009250 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 994484009251 Walker A/P-loop; other site 994484009252 ATP binding site [chemical binding]; other site 994484009253 Q-loop/lid; other site 994484009254 ABC transporter signature motif; other site 994484009255 Walker B; other site 994484009256 D-loop; other site 994484009257 H-loop/switch region; other site 994484009258 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484009259 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484009260 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484009261 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484009262 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 994484009263 Right handed beta helix region; Region: Beta_helix; pfam13229 994484009264 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 994484009265 Cadherin repeat-like domain; Region: CA_like; cl15786 994484009266 Ca2+ binding site [ion binding]; other site 994484009267 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 994484009268 Cadherin repeat-like domain; Region: CA_like; cl15786 994484009269 Ca2+ binding site [ion binding]; other site 994484009270 Protein of unknown function (DUF2717); Region: DUF2717; cl17568 994484009271 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 994484009272 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484009273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 994484009274 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 994484009275 HemN C-terminal domain; Region: HemN_C; pfam06969 994484009276 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 994484009277 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 994484009278 FeS/SAM binding site; other site 994484009279 HemN C-terminal domain; Region: HemN_C; pfam06969 994484009280 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 994484009281 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 994484009282 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 994484009283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484009284 Walker A/P-loop; other site 994484009285 ATP binding site [chemical binding]; other site 994484009286 Q-loop/lid; other site 994484009287 ABC transporter signature motif; other site 994484009288 Walker B; other site 994484009289 D-loop; other site 994484009290 H-loop/switch region; other site 994484009291 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 994484009292 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 994484009293 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484009294 nitrous-oxide reductase; Validated; Region: PRK02888 994484009295 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 994484009296 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 994484009297 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 994484009298 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 994484009299 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 994484009300 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 994484009301 Walker A/P-loop; other site 994484009302 ATP binding site [chemical binding]; other site 994484009303 Q-loop/lid; other site 994484009304 ABC transporter signature motif; other site 994484009305 Walker B; other site 994484009306 D-loop; other site 994484009307 H-loop/switch region; other site 994484009308 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 994484009309 NosL; Region: NosL; pfam05573 994484009310 Uncharacterized conserved protein [Function unknown]; Region: COG3287 994484009311 FIST N domain; Region: FIST; pfam08495 994484009312 FIST C domain; Region: FIST_C; pfam10442 994484009313 PAS fold; Region: PAS_7; pfam12860 994484009314 PAS fold; Region: PAS_7; pfam12860 994484009315 PAS domain S-box; Region: sensory_box; TIGR00229 994484009316 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 994484009317 putative active site [active] 994484009318 heme pocket [chemical binding]; other site 994484009319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484009320 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484009321 dimer interface [polypeptide binding]; other site 994484009322 phosphorylation site [posttranslational modification] 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 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 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 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484009334 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 994484009335 active site 994484009336 phosphorylation site [posttranslational modification] 994484009337 intermolecular recognition site; other site 994484009338 dimerization interface [polypeptide binding]; other site 994484009339 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484009340 DNA binding residues [nucleotide binding] 994484009341 dimerization interface [polypeptide binding]; other site 994484009342 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 994484009343 active site residue [active] 994484009344 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 994484009345 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 994484009346 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 994484009347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484009348 Walker A/P-loop; other site 994484009349 ATP binding site [chemical binding]; other site 994484009350 Q-loop/lid; other site 994484009351 ABC transporter signature motif; other site 994484009352 Walker B; other site 994484009353 D-loop; other site 994484009354 H-loop/switch region; other site 994484009355 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 994484009356 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 994484009357 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 994484009358 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 994484009359 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 994484009360 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 994484009361 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 994484009362 ligand binding site [chemical binding]; other site 994484009363 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 994484009364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484009365 Histidine kinase; Region: HisKA_3; pfam07730 994484009366 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 994484009367 ATP binding site [chemical binding]; other site 994484009368 Mg2+ binding site [ion binding]; other site 994484009369 G-X-G motif; other site 994484009370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484009371 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 994484009372 active site 994484009373 phosphorylation site [posttranslational modification] 994484009374 intermolecular recognition site; other site 994484009375 dimerization interface [polypeptide binding]; other site 994484009376 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484009377 DNA binding residues [nucleotide binding] 994484009378 dimerization interface [polypeptide binding]; other site 994484009379 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484009380 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484009381 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 994484009382 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484009383 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484009384 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 994484009385 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 994484009386 dimer interface [polypeptide binding]; other site 994484009387 Trp docking motif [polypeptide binding]; other site 994484009388 active site 994484009389 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 994484009390 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484009391 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484009392 substrate binding pocket [chemical binding]; other site 994484009393 membrane-bound complex binding site; other site 994484009394 hinge residues; other site 994484009395 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 994484009396 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 994484009397 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 994484009398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 994484009399 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 994484009400 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 994484009401 dimer interface [polypeptide binding]; other site 994484009402 Trp docking motif [polypeptide binding]; other site 994484009403 active site 994484009404 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484009405 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009406 NAD(P) binding site [chemical binding]; other site 994484009407 catalytic residues [active] 994484009408 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 994484009409 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484009410 putative active site [active] 994484009411 metal binding site [ion binding]; metal-binding site 994484009412 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484009413 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484009414 dimer interface [polypeptide binding]; other site 994484009415 phosphorylation site [posttranslational modification] 994484009416 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 994484009417 ATP binding site [chemical binding]; other site 994484009418 Mg2+ binding site [ion binding]; other site 994484009419 G-X-G motif; other site 994484009420 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484009421 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 994484009422 active site 994484009423 phosphorylation site [posttranslational modification] 994484009424 intermolecular recognition site; other site 994484009425 dimerization interface [polypeptide binding]; other site 994484009426 malate:quinone oxidoreductase; Validated; Region: PRK05257 994484009427 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 994484009428 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 994484009429 Citrate transporter; Region: CitMHS; pfam03600 994484009430 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 994484009431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009433 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 994484009434 putative dimerization interface [polypeptide binding]; other site 994484009435 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 994484009436 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 994484009437 sorbitol dehydrogenase; Provisional; Region: PRK07067 994484009438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009439 NAD(P) binding site [chemical binding]; other site 994484009440 active site 994484009441 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484009442 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 994484009443 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484009444 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484009445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009446 Activator of aromatic catabolism; Region: XylR_N; pfam06505 994484009447 V4R domain; Region: V4R; pfam02830 994484009448 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 994484009449 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484009450 Walker A motif; other site 994484009451 ATP binding site [chemical binding]; other site 994484009452 Walker B motif; other site 994484009453 arginine finger; other site 994484009454 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009455 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 994484009456 NAD(P) binding site [chemical binding]; other site 994484009457 catalytic residues [active] 994484009458 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484009459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009460 NAD(P) binding site [chemical binding]; other site 994484009461 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 994484009462 active site 994484009463 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484009464 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484009465 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484009466 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 994484009467 4Fe-4S binding domain; Region: Fer4_5; pfam12801 994484009468 Iron permease FTR1 family; Region: FTR1; cl00475 994484009469 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 994484009470 Fe2+ transport protein; Region: Iron_transport; pfam10634 994484009471 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 994484009472 hypothetical protein; Provisional; Region: PRK06156 994484009473 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 994484009474 active site 994484009475 metal binding site [ion binding]; metal-binding site 994484009476 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 994484009477 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 994484009478 Peptidase family U32; Region: Peptidase_U32; pfam01136 994484009479 Collagenase; Region: DUF3656; pfam12392 994484009480 Cache domain; Region: Cache_1; pfam02743 994484009481 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484009482 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484009483 metal binding site [ion binding]; metal-binding site 994484009484 active site 994484009485 I-site; other site 994484009486 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 994484009487 active site 994484009488 metal binding site [ion binding]; metal-binding site 994484009489 homotetramer interface [polypeptide binding]; other site 994484009490 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484009491 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484009492 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484009493 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484009494 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484009495 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484009496 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484009497 DNA binding site [nucleotide binding] 994484009498 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 994484009499 putative ligand binding site [chemical binding]; other site 994484009500 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 994484009501 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 994484009502 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 994484009503 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 994484009504 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 994484009505 S-adenosylmethionine binding site [chemical binding]; other site 994484009506 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 994484009507 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 994484009508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484009509 short chain dehydrogenase; Provisional; Region: PRK06101 994484009510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484009511 NAD(P) binding site [chemical binding]; other site 994484009512 active site 994484009513 SnoaL-like domain; Region: SnoaL_2; pfam12680 994484009514 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484009515 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 994484009516 FMN binding site [chemical binding]; other site 994484009517 active site 994484009518 substrate binding site [chemical binding]; other site 994484009519 catalytic residue [active] 994484009520 Pirin-related protein [General function prediction only]; Region: COG1741 994484009521 Pirin; Region: Pirin; pfam02678 994484009522 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484009523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009524 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 994484009525 putative effector binding pocket; other site 994484009526 dimerization interface [polypeptide binding]; other site 994484009527 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 994484009528 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 994484009529 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 994484009530 homotrimer interaction site [polypeptide binding]; other site 994484009531 putative active site [active] 994484009532 Uncharacterized conserved protein [Function unknown]; Region: COG3342 994484009533 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 994484009534 acetylornithine deacetylase; Provisional; Region: PRK07522 994484009535 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484009536 metal binding site [ion binding]; metal-binding site 994484009537 putative dimer interface [polypeptide binding]; other site 994484009538 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484009539 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484009540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009542 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 994484009543 putative substrate binding pocket [chemical binding]; other site 994484009544 dimerization interface [polypeptide binding]; other site 994484009545 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 994484009546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484009547 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484009548 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 994484009549 active site 994484009550 phosphorylation site [posttranslational modification] 994484009551 intermolecular recognition site; other site 994484009552 dimerization interface [polypeptide binding]; other site 994484009553 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 994484009554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009555 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 994484009556 putative substrate binding pocket [chemical binding]; other site 994484009557 putative dimerization interface [polypeptide binding]; other site 994484009558 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484009559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009560 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 994484009561 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484009563 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 994484009564 Amidase; Region: Amidase; pfam01425 994484009565 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484009566 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009567 NAD(P) binding site [chemical binding]; other site 994484009568 catalytic residues [active] 994484009569 PAS fold; Region: PAS_3; pfam08447 994484009570 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 994484009571 putative active site [active] 994484009572 heme pocket [chemical binding]; other site 994484009573 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484009574 dimer interface [polypeptide binding]; other site 994484009575 putative CheW interface [polypeptide binding]; other site 994484009576 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 994484009577 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484009578 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 994484009579 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 994484009580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009581 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 994484009582 classical (c) SDRs; Region: SDR_c; cd05233 994484009583 NAD(P) binding site [chemical binding]; other site 994484009584 active site 994484009585 classical (c) SDRs; Region: SDR_c; cd05233 994484009586 short chain dehydrogenase; Provisional; Region: PRK07478 994484009587 NAD(P) binding site [chemical binding]; other site 994484009588 active site 994484009589 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 994484009590 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484009591 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484009592 DNA binding residues [nucleotide binding] 994484009593 dimerization interface [polypeptide binding]; other site 994484009594 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 994484009595 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484009596 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484009597 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 994484009598 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484009599 Flavin binding site [chemical binding]; other site 994484009600 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 994484009601 Transcriptional regulators [Transcription]; Region: MarR; COG1846 994484009602 HemN C-terminal domain; Region: HemN_C; pfam06969 994484009603 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 994484009604 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484009605 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 994484009606 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 994484009607 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484009608 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009609 putative substrate translocation pore; other site 994484009610 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 994484009611 putative substrate binding pocket [chemical binding]; other site 994484009612 trimer interface [polypeptide binding]; other site 994484009613 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 994484009614 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 994484009615 putative active site [active] 994484009616 putative metal binding site [ion binding]; other site 994484009617 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 994484009618 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 994484009619 NAD binding site [chemical binding]; other site 994484009620 catalytic residues [active] 994484009621 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 994484009622 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484009623 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 994484009624 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 994484009625 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 994484009626 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484009627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009628 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 994484009629 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484009630 hypothetical protein; Provisional; Region: PRK09936 994484009631 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 994484009632 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 994484009633 active site 994484009634 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 994484009635 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 994484009636 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 994484009637 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 994484009638 homodimer interface [polypeptide binding]; other site 994484009639 active site 994484009640 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 994484009641 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 994484009642 DctM-like transporters; Region: DctM; pfam06808 994484009643 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 994484009644 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 994484009645 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484009646 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484009647 substrate binding pocket [chemical binding]; other site 994484009648 membrane-bound complex binding site; other site 994484009649 hinge residues; other site 994484009650 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484009651 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484009652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484009654 putative substrate translocation pore; other site 994484009655 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 994484009656 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484009657 putative NAD(P) binding site [chemical binding]; other site 994484009658 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484009659 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 994484009660 active site 994484009661 phosphorylation site [posttranslational modification] 994484009662 intermolecular recognition site; other site 994484009663 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484009664 DNA binding residues [nucleotide binding] 994484009665 dimerization interface [polypeptide binding]; other site 994484009666 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 994484009667 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 994484009668 Histidine kinase; Region: HisKA_3; pfam07730 994484009669 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 994484009670 ATP binding site [chemical binding]; other site 994484009671 Mg2+ binding site [ion binding]; other site 994484009672 G-X-G motif; other site 994484009673 carbon starvation protein A; Provisional; Region: PRK15015 994484009674 Carbon starvation protein CstA; Region: CstA; pfam02554 994484009675 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 994484009676 Uncharacterized small protein [Function unknown]; Region: COG2879 994484009677 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484009678 dimerization interface [polypeptide binding]; other site 994484009679 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484009681 dimer interface [polypeptide binding]; other site 994484009682 putative CheW interface [polypeptide binding]; other site 994484009683 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484009684 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 994484009685 N-terminal plug; other site 994484009686 ligand-binding site [chemical binding]; other site 994484009687 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 994484009688 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 994484009689 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 994484009690 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 994484009691 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484009692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484009693 Walker A/P-loop; other site 994484009694 ATP binding site [chemical binding]; other site 994484009695 Q-loop/lid; other site 994484009696 ABC transporter signature motif; other site 994484009697 Walker B; other site 994484009698 D-loop; other site 994484009699 H-loop/switch region; other site 994484009700 TOBE domain; Region: TOBE_2; pfam08402 994484009701 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484009702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484009703 dimer interface [polypeptide binding]; other site 994484009704 conserved gate region; other site 994484009705 putative PBP binding loops; other site 994484009706 ABC-ATPase subunit interface; other site 994484009707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484009708 dimer interface [polypeptide binding]; other site 994484009709 conserved gate region; other site 994484009710 putative PBP binding loops; other site 994484009711 ABC-ATPase subunit interface; other site 994484009712 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484009713 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 994484009714 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 994484009715 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 994484009716 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 994484009717 Uncharacterized conserved protein [Function unknown]; Region: COG5470 994484009718 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 994484009719 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 994484009720 nudix motif; other site 994484009721 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484009722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484009723 DNA-binding site [nucleotide binding]; DNA binding site 994484009724 FCD domain; Region: FCD; pfam07729 994484009725 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 994484009726 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 994484009727 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484009728 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 994484009729 NAD(P) binding site [chemical binding]; other site 994484009730 catalytic residues [active] 994484009731 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484009732 Amino acid synthesis; Region: AA_synth; pfam06684 994484009733 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 994484009734 generic binding surface II; other site 994484009735 Uncharacterized conserved protein [Function unknown]; Region: COG2308 994484009736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 994484009737 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 994484009738 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 994484009739 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484009740 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 994484009741 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 994484009742 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 994484009743 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 994484009744 Surface antigen; Region: Bac_surface_Ag; pfam01103 994484009745 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 994484009746 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 994484009747 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 994484009748 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 994484009749 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 994484009750 Gram-negative bacterial tonB protein; Region: TonB; cl10048 994484009751 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 994484009752 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 994484009753 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 994484009754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009756 LysR substrate binding domain; Region: LysR_substrate; pfam03466 994484009757 dimerization interface [polypeptide binding]; other site 994484009758 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484009759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484009760 Coenzyme A binding pocket [chemical binding]; other site 994484009761 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 994484009762 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 994484009763 dimer interface [polypeptide binding]; other site 994484009764 catalytic triad [active] 994484009765 peroxidatic and resolving cysteines [active] 994484009766 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 994484009767 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484009768 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484009769 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 994484009770 Protein export membrane protein; Region: SecD_SecF; cl14618 994484009771 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 994484009772 Protein export membrane protein; Region: SecD_SecF; cl14618 994484009773 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484009774 enoyl-CoA hydratase; Provisional; Region: PRK06142 994484009775 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 994484009776 substrate binding site [chemical binding]; other site 994484009777 oxyanion hole (OAH) forming residues; other site 994484009778 trimer interface [polypeptide binding]; other site 994484009779 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 994484009780 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 994484009781 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 994484009782 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 994484009783 putative NADH binding site [chemical binding]; other site 994484009784 putative active site [active] 994484009785 nudix motif; other site 994484009786 putative metal binding site [ion binding]; other site 994484009787 hypothetical protein; Provisional; Region: PRK10621 994484009788 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484009789 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 994484009790 nudix motif; other site 994484009791 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 994484009792 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 994484009793 NodB motif; other site 994484009794 active site 994484009795 catalytic site [active] 994484009796 metal binding site [ion binding]; metal-binding site 994484009797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484009798 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 994484009799 ATP binding site [chemical binding]; other site 994484009800 G-X-G motif; other site 994484009801 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 994484009802 SPFH domain / Band 7 family; Region: Band_7; pfam01145 994484009803 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 994484009804 YccA-like proteins; Region: YccA_like; cd10433 994484009805 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 994484009806 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009807 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484009808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009810 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 994484009811 putative substrate binding pocket [chemical binding]; other site 994484009812 putative dimerization interface [polypeptide binding]; other site 994484009813 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 994484009814 active site 994484009815 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 994484009816 Protease inhibitor Inh; Region: Inh; pfam02974 994484009817 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 994484009818 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 994484009819 Walker A/P-loop; other site 994484009820 ATP binding site [chemical binding]; other site 994484009821 Q-loop/lid; other site 994484009822 ABC transporter signature motif; other site 994484009823 Walker B; other site 994484009824 D-loop; other site 994484009825 H-loop/switch region; other site 994484009826 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 994484009827 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 994484009828 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484009829 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 994484009830 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 994484009831 catalytic triad [active] 994484009832 putative active site [active] 994484009833 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 994484009834 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484009835 Autotransporter beta-domain; Region: Autotransporter; pfam03797 994484009836 Lipase (class 3); Region: Lipase_3; pfam01764 994484009837 nucleophilic elbow; other site 994484009838 catalytic triad; other site 994484009839 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 994484009840 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 994484009841 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 994484009842 DEAD/DEAH box helicase; Region: DEAD; pfam00270 994484009843 ATP binding site [chemical binding]; other site 994484009844 DEAD_2; Region: DEAD_2; pfam06733 994484009845 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 994484009846 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 994484009847 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484009848 putative active site [active] 994484009849 heme pocket [chemical binding]; other site 994484009850 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 994484009851 putative active site [active] 994484009852 heme pocket [chemical binding]; other site 994484009853 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484009854 dimer interface [polypeptide binding]; other site 994484009855 phosphorylation site [posttranslational modification] 994484009856 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 994484009857 ATP binding site [chemical binding]; other site 994484009858 Mg2+ binding site [ion binding]; other site 994484009859 G-X-G motif; other site 994484009860 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 994484009861 active site 994484009862 phosphorylation site [posttranslational modification] 994484009863 intermolecular recognition site; other site 994484009864 dimerization interface [polypeptide binding]; other site 994484009865 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 994484009866 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 994484009867 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 994484009868 carboxylate-amine ligase; Provisional; Region: PRK13515 994484009869 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 994484009870 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 994484009871 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 994484009872 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 994484009873 active site 994484009874 DNA binding site [nucleotide binding] 994484009875 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 994484009876 DNA binding site [nucleotide binding] 994484009877 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 994484009878 nucleotide binding site [chemical binding]; other site 994484009879 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 994484009880 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 994484009881 short chain dehydrogenase; Provisional; Region: PRK06701 994484009882 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 994484009883 NAD binding site [chemical binding]; other site 994484009884 metal binding site [ion binding]; metal-binding site 994484009885 active site 994484009886 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 994484009887 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484009888 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 994484009889 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 994484009890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009891 homodimer interface [polypeptide binding]; other site 994484009892 catalytic residue [active] 994484009893 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484009894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484009895 dimer interface [polypeptide binding]; other site 994484009896 putative CheW interface [polypeptide binding]; other site 994484009897 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484009898 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484009899 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 994484009900 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 994484009901 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484009902 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484009903 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484009904 Epoxide hydrolase N terminus; Region: EHN; pfam06441 994484009905 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484009906 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484009907 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484009908 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 994484009909 Flagellin N-methylase; Region: FliB; pfam03692 994484009910 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484009911 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484009912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484009913 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484009914 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 994484009915 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484009916 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484009917 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484009918 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 994484009919 catalytic loop [active] 994484009920 iron binding site [ion binding]; other site 994484009921 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484009922 outer membrane porin, OprD family; Region: OprD; pfam03573 994484009923 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 994484009924 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484009925 active site 994484009926 metal binding site [ion binding]; metal-binding site 994484009927 hexamer interface [polypeptide binding]; other site 994484009928 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484009929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484009930 Walker A/P-loop; other site 994484009931 ATP binding site [chemical binding]; other site 994484009932 Q-loop/lid; other site 994484009933 ABC transporter signature motif; other site 994484009934 Walker B; other site 994484009935 D-loop; other site 994484009936 H-loop/switch region; other site 994484009937 TOBE domain; Region: TOBE_2; pfam08402 994484009938 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484009939 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484009940 dimer interface [polypeptide binding]; other site 994484009941 conserved gate region; other site 994484009942 putative PBP binding loops; other site 994484009943 ABC-ATPase subunit interface; other site 994484009944 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484009945 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484009946 dimer interface [polypeptide binding]; other site 994484009947 conserved gate region; other site 994484009948 putative PBP binding loops; other site 994484009949 ABC-ATPase subunit interface; other site 994484009950 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 994484009951 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 994484009952 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484009953 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484009954 DNA binding site [nucleotide binding] 994484009955 domain linker motif; other site 994484009956 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 994484009957 putative dimerization interface [polypeptide binding]; other site 994484009958 putative ligand binding site [chemical binding]; other site 994484009959 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 994484009960 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 994484009961 non-specific DNA binding site [nucleotide binding]; other site 994484009962 salt bridge; other site 994484009963 sequence-specific DNA binding site [nucleotide binding]; other site 994484009964 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 994484009965 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 994484009966 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 994484009967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484009968 homodimer interface [polypeptide binding]; other site 994484009969 catalytic residue [active] 994484009970 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 994484009971 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484009972 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 994484009973 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 994484009974 acetylornithine deacetylase; Provisional; Region: PRK07522 994484009975 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484009976 metal binding site [ion binding]; metal-binding site 994484009977 putative dimer interface [polypeptide binding]; other site 994484009978 metabolite-proton symporter; Region: 2A0106; TIGR00883 994484009979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009980 putative substrate translocation pore; other site 994484009981 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484009982 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484009983 putative substrate translocation pore; other site 994484009984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484009985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009986 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 994484009987 putative effector binding pocket; other site 994484009988 putative dimerization interface [polypeptide binding]; other site 994484009989 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 994484009990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484009991 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 994484009992 dimerizarion interface [polypeptide binding]; other site 994484009993 CrgA pocket; other site 994484009994 substrate binding pocket [chemical binding]; other site 994484009995 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 994484009996 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 994484009997 octamer interface [polypeptide binding]; other site 994484009998 active site 994484009999 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 994484010000 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 994484010001 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 994484010002 dimer interface [polypeptide binding]; other site 994484010003 active site 994484010004 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484010005 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010006 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 994484010007 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 994484010008 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 994484010009 putative alpha subunit interface [polypeptide binding]; other site 994484010010 putative active site [active] 994484010011 putative substrate binding site [chemical binding]; other site 994484010012 Fe binding site [ion binding]; other site 994484010013 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 994484010014 inter-subunit interface; other site 994484010015 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 994484010016 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 994484010017 catalytic loop [active] 994484010018 iron binding site [ion binding]; other site 994484010019 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 994484010020 FAD binding pocket [chemical binding]; other site 994484010021 FAD binding motif [chemical binding]; other site 994484010022 phosphate binding motif [ion binding]; other site 994484010023 beta-alpha-beta structure motif; other site 994484010024 NAD binding pocket [chemical binding]; other site 994484010025 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 994484010026 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 994484010027 putative NAD(P) binding site [chemical binding]; other site 994484010028 active site 994484010029 benzoate transport; Region: 2A0115; TIGR00895 994484010030 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010031 putative substrate translocation pore; other site 994484010032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010033 outer membrane porin, OprD family; Region: OprD; pfam03573 994484010034 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 994484010035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010036 NAD(P) binding site [chemical binding]; other site 994484010037 active site 994484010038 conserved hypothetical protein; Region: TIGR02270 994484010039 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 994484010040 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 994484010041 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 994484010042 active site 994484010043 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 994484010044 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 994484010045 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484010046 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484010047 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 994484010048 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 994484010049 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 994484010050 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 994484010051 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 994484010052 active site 994484010053 phosphorylation site [posttranslational modification] 994484010054 intermolecular recognition site; other site 994484010055 dimerization interface [polypeptide binding]; other site 994484010056 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484010057 DNA binding site [nucleotide binding] 994484010058 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484010059 HAMP domain; Region: HAMP; pfam00672 994484010060 dimerization interface [polypeptide binding]; other site 994484010061 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484010062 dimer interface [polypeptide binding]; other site 994484010063 phosphorylation site [posttranslational modification] 994484010064 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 994484010065 ATP binding site [chemical binding]; other site 994484010066 Mg2+ binding site [ion binding]; other site 994484010067 G-X-G motif; other site 994484010068 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484010069 short chain dehydrogenase; Provisional; Region: PRK06197 994484010070 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 994484010071 putative NAD(P) binding site [chemical binding]; other site 994484010072 active site 994484010073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010074 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 994484010075 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 994484010076 ornithine cyclodeaminase; Validated; Region: PRK07589 994484010077 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 994484010078 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 994484010079 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 994484010080 active site 994484010081 Zn binding site [ion binding]; other site 994484010082 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010083 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 994484010084 putative DNA binding site [nucleotide binding]; other site 994484010085 putative Zn2+ binding site [ion binding]; other site 994484010086 AsnC family; Region: AsnC_trans_reg; pfam01037 994484010087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 994484010088 ACT domain; Region: ACT_3; pfam10000 994484010089 Family description; Region: ACT_7; pfam13840 994484010090 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 994484010091 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484010092 Walker A/P-loop; other site 994484010093 ATP binding site [chemical binding]; other site 994484010094 Q-loop/lid; other site 994484010095 ABC transporter signature motif; other site 994484010096 Walker B; other site 994484010097 D-loop; other site 994484010098 H-loop/switch region; other site 994484010099 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484010100 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 994484010101 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484010102 Walker A/P-loop; other site 994484010103 ATP binding site [chemical binding]; other site 994484010104 Q-loop/lid; other site 994484010105 ABC transporter signature motif; other site 994484010106 Walker B; other site 994484010107 D-loop; other site 994484010108 H-loop/switch region; other site 994484010109 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 994484010110 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 994484010111 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 994484010112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484010113 dimer interface [polypeptide binding]; other site 994484010114 conserved gate region; other site 994484010115 putative PBP binding loops; other site 994484010116 ABC-ATPase subunit interface; other site 994484010117 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484010118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484010119 dimer interface [polypeptide binding]; other site 994484010120 conserved gate region; other site 994484010121 putative PBP binding loops; other site 994484010122 ABC-ATPase subunit interface; other site 994484010123 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484010124 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 994484010125 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 994484010126 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484010127 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 994484010128 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 994484010129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010130 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484010131 putative substrate translocation pore; other site 994484010132 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484010133 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484010134 DNA binding residues [nucleotide binding] 994484010135 dimerization interface [polypeptide binding]; other site 994484010136 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 994484010137 classical (c) SDRs; Region: SDR_c; cd05233 994484010138 NAD(P) binding site [chemical binding]; other site 994484010139 active site 994484010140 ethanolamine permease; Region: 2A0305; TIGR00908 994484010141 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 994484010142 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 994484010143 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 994484010144 Transporter associated domain; Region: CorC_HlyC; smart01091 994484010145 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010146 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010147 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010148 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484010149 Methyltransferase domain; Region: Methyltransf_31; pfam13847 994484010150 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 994484010151 S-adenosylmethionine binding site [chemical binding]; other site 994484010152 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 994484010153 outer membrane porin, OprD family; Region: OprD; pfam03573 994484010154 benzoate transport; Region: 2A0115; TIGR00895 994484010155 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010156 putative substrate translocation pore; other site 994484010157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010159 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 994484010160 dimerization interface [polypeptide binding]; other site 994484010161 hypothetical protein; Provisional; Region: PRK05463 994484010162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010164 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 994484010165 dimerization interface [polypeptide binding]; other site 994484010166 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 994484010167 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 994484010168 putative di-iron ligands [ion binding]; other site 994484010169 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 994484010170 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 994484010171 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 994484010172 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484010173 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 994484010174 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 994484010175 HPP family; Region: HPP; pfam04982 994484010176 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 994484010177 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 994484010178 substrate binding site [chemical binding]; other site 994484010179 oxyanion hole (OAH) forming residues; other site 994484010180 trimer interface [polypeptide binding]; other site 994484010181 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 994484010182 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484010183 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484010184 active site 994484010185 enoyl-CoA hydratase; Provisional; Region: PRK05862 994484010186 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 994484010187 substrate binding site [chemical binding]; other site 994484010188 oxyanion hole (OAH) forming residues; other site 994484010189 trimer interface [polypeptide binding]; other site 994484010190 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484010191 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484010192 active site 994484010193 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 994484010194 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 994484010195 dimer interface [polypeptide binding]; other site 994484010196 active site 994484010197 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 994484010198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010199 NAD(P) binding site [chemical binding]; other site 994484010200 active site 994484010201 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 994484010202 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484010203 acyl-activating enzyme (AAE) consensus motif; other site 994484010204 AMP binding site [chemical binding]; other site 994484010205 active site 994484010206 CoA binding site [chemical binding]; other site 994484010207 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 994484010208 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 994484010209 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 994484010210 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 994484010211 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 994484010212 Ligand binding site; other site 994484010213 Putative Catalytic site; other site 994484010214 DXD motif; other site 994484010215 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484010216 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 994484010217 putative NAD(P) binding site [chemical binding]; other site 994484010218 active site 994484010219 putative substrate binding site [chemical binding]; other site 994484010220 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484010221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 994484010222 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010223 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 994484010224 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 994484010225 domain interface [polypeptide binding]; other site 994484010226 putative active site [active] 994484010227 catalytic site [active] 994484010228 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 994484010229 domain interface [polypeptide binding]; other site 994484010230 putative active site [active] 994484010231 catalytic site [active] 994484010232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484010233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484010234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 994484010235 SnoaL-like domain; Region: SnoaL_2; pfam12680 994484010236 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484010237 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484010238 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 994484010239 N-terminal plug; other site 994484010240 ligand-binding site [chemical binding]; other site 994484010241 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484010242 FecR protein; Region: FecR; pfam04773 994484010243 RNA polymerase sigma factor; Provisional; Region: PRK12528 994484010244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484010245 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484010246 DNA binding residues [nucleotide binding] 994484010247 SnoaL-like domain; Region: SnoaL_3; pfam13474 994484010248 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; cd00531 994484010249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484010250 Histidine kinase; Region: HisKA_3; pfam07730 994484010251 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 994484010252 ATP binding site [chemical binding]; other site 994484010253 Mg2+ binding site [ion binding]; other site 994484010254 G-X-G motif; other site 994484010255 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484010256 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 994484010257 active site 994484010258 phosphorylation site [posttranslational modification] 994484010259 intermolecular recognition site; other site 994484010260 dimerization interface [polypeptide binding]; other site 994484010261 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 994484010262 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484010263 DNA binding residues [nucleotide binding] 994484010264 dimerization interface [polypeptide binding]; other site 994484010265 CHASE3 domain; Region: CHASE3; pfam05227 994484010266 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484010267 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 994484010268 putative active site [active] 994484010269 heme pocket [chemical binding]; other site 994484010270 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484010271 dimer interface [polypeptide binding]; other site 994484010272 phosphorylation site [posttranslational modification] 994484010273 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 994484010274 ATP binding site [chemical binding]; other site 994484010275 G-X-G motif; other site 994484010276 Response regulator receiver domain; Region: Response_reg; pfam00072 994484010277 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 994484010278 active site 994484010279 phosphorylation site [posttranslational modification] 994484010280 intermolecular recognition site; other site 994484010281 dimerization interface [polypeptide binding]; other site 994484010282 Response regulator receiver domain; Region: Response_reg; pfam00072 994484010283 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 994484010284 active site 994484010285 phosphorylation site [posttranslational modification] 994484010286 intermolecular recognition site; other site 994484010287 dimerization interface [polypeptide binding]; other site 994484010288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010289 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010291 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 994484010292 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 994484010293 TolR protein; Region: tolR; TIGR02801 994484010294 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484010295 Phytase; Region: Phytase; cl17685 994484010296 Phytase; Region: Phytase; cl17685 994484010297 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 994484010298 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 994484010299 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 994484010300 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484010301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484010302 metal binding site [ion binding]; metal-binding site 994484010303 active site 994484010304 I-site; other site 994484010305 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484010306 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010307 FOG: CBS domain [General function prediction only]; Region: COG0517 994484010308 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 994484010309 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 994484010310 nitrite reductase subunit NirD; Provisional; Region: PRK14989 994484010311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484010313 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484010314 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 994484010315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484010316 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484010317 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 994484010318 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484010319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 994484010320 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 994484010321 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 994484010322 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 994484010323 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 994484010324 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 994484010325 S-adenosylmethionine binding site [chemical binding]; other site 994484010326 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 correspond...; Region: LRR_RI; cl15309 994484010327 Leucine-rich repeats; other site 994484010328 Substrate binding site [chemical binding]; other site 994484010329 Leucine rich repeat; Region: LRR_8; pfam13855 994484010330 Leucine rich repeat; Region: LRR_8; pfam13855 994484010331 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 994484010332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010333 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 994484010334 dimerization interface [polypeptide binding]; other site 994484010335 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484010336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010337 putative substrate translocation pore; other site 994484010338 L-rhamnonate dehydratase; Provisional; Region: PRK15440 994484010339 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 994484010340 putative active site pocket [active] 994484010341 putative metal binding site [ion binding]; other site 994484010342 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 994484010343 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 994484010344 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484010345 NAD binding site [chemical binding]; other site 994484010346 catalytic residues [active] 994484010347 substrate binding site [chemical binding]; other site 994484010348 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484010349 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484010350 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484010351 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010352 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 994484010353 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484010354 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484010355 substrate binding pocket [chemical binding]; other site 994484010356 membrane-bound complex binding site; other site 994484010357 hinge residues; other site 994484010358 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 994484010359 homotrimer interaction site [polypeptide binding]; other site 994484010360 putative active site [active] 994484010361 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 994484010362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484010363 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484010364 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484010365 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484010366 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484010367 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 994484010368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010369 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 994484010370 putative dimerization interface [polypeptide binding]; other site 994484010371 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 994484010372 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484010373 iron-sulfur cluster [ion binding]; other site 994484010374 [2Fe-2S] cluster binding site [ion binding]; other site 994484010375 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 994484010376 alpha subunit interface [polypeptide binding]; other site 994484010377 active site 994484010378 substrate binding site [chemical binding]; other site 994484010379 Fe binding site [ion binding]; other site 994484010380 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484010381 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 994484010382 FMN-binding pocket [chemical binding]; other site 994484010383 flavin binding motif; other site 994484010384 phosphate binding motif [ion binding]; other site 994484010385 beta-alpha-beta structure motif; other site 994484010386 NAD binding pocket [chemical binding]; other site 994484010387 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 994484010388 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 994484010389 catalytic loop [active] 994484010390 iron binding site [ion binding]; other site 994484010391 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484010392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484010393 DNA-binding site [nucleotide binding]; DNA binding site 994484010394 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484010395 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 994484010396 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484010397 FecR protein; Region: FecR; pfam04773 994484010398 Penicillin amidase; Region: Penicil_amidase; pfam01804 994484010399 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 994484010400 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...; Region: Ntn_CA; cd01936 994484010401 active site 994484010402 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 994484010403 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 994484010404 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 994484010405 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010406 putative substrate translocation pore; other site 994484010407 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 994484010408 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 994484010409 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 994484010410 putative catalytic cysteine [active] 994484010411 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484010412 AMP binding site [chemical binding]; other site 994484010413 active site 994484010414 acyl-activating enzyme (AAE) consensus motif; other site 994484010415 CoA binding site [chemical binding]; other site 994484010416 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484010417 acyl-activating enzyme (AAE) consensus motif; other site 994484010418 AMP binding site [chemical binding]; other site 994484010419 active site 994484010420 CoA binding site [chemical binding]; other site 994484010421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 994484010422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484010423 Coenzyme A binding pocket [chemical binding]; other site 994484010424 HAMP domain; Region: HAMP; pfam00672 994484010425 dimerization interface [polypeptide binding]; other site 994484010426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484010428 dimer interface [polypeptide binding]; other site 994484010429 putative CheW interface [polypeptide binding]; other site 994484010430 Protein of unknown function, DUF; Region: DUF411; cl01142 994484010431 Predicted membrane protein [Function unknown]; Region: COG1238 994484010432 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 994484010433 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484010434 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 994484010435 dimerization interface [polypeptide binding]; other site 994484010436 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484010437 NAD binding site [chemical binding]; other site 994484010438 ligand binding site [chemical binding]; other site 994484010439 catalytic site [active] 994484010440 glycogen synthase; Provisional; Region: glgA; PRK00654 994484010441 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 994484010442 ADP-binding pocket [chemical binding]; other site 994484010443 homodimer interface [polypeptide binding]; other site 994484010444 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 994484010445 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 994484010446 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 994484010447 catalytic site [active] 994484010448 active site 994484010449 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 994484010450 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 994484010451 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 994484010452 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 994484010453 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 994484010454 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 994484010455 active site 994484010456 catalytic site [active] 994484010457 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 994484010458 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 994484010459 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 994484010460 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 994484010461 active site 994484010462 catalytic site [active] 994484010463 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 994484010464 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 994484010465 putative catalytic site [active] 994484010466 putative metal binding site [ion binding]; other site 994484010467 putative phosphate binding site [ion binding]; other site 994484010468 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 994484010469 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484010470 Autotransporter beta-domain; Region: Autotransporter; smart00869 994484010471 Autotransporter beta-domain; Region: Autotransporter; smart00869 994484010472 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 994484010473 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484010474 tetrameric interface [polypeptide binding]; other site 994484010475 activator binding site; other site 994484010476 NADP binding site [chemical binding]; other site 994484010477 substrate binding site [chemical binding]; other site 994484010478 catalytic residues [active] 994484010479 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 994484010480 EamA-like transporter family; Region: EamA; pfam00892 994484010481 EamA-like transporter family; Region: EamA; pfam00892 994484010482 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010483 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 994484010484 AsnC family; Region: AsnC_trans_reg; pfam01037 994484010485 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 994484010486 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 994484010487 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 994484010488 Family description; Region: UvrD_C_2; pfam13538 994484010489 Pirin-related protein [General function prediction only]; Region: COG1741 994484010490 Pirin; Region: Pirin; pfam02678 994484010491 phosphoglucomutase; Validated; Region: PRK07564 994484010492 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 994484010493 active site 994484010494 substrate binding site [chemical binding]; other site 994484010495 metal binding site [ion binding]; metal-binding site 994484010496 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 994484010497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484010498 DNA-binding site [nucleotide binding]; DNA binding site 994484010499 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 994484010500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010501 homodimer interface [polypeptide binding]; other site 994484010502 catalytic residue [active] 994484010503 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 994484010504 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484010505 putative NAD(P) binding site [chemical binding]; other site 994484010506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010508 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 994484010509 putative substrate binding pocket [chemical binding]; other site 994484010510 putative dimerization interface [polypeptide binding]; other site 994484010511 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484010512 Cache domain; Region: Cache_1; pfam02743 994484010513 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484010514 dimerization interface [polypeptide binding]; other site 994484010515 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484010517 dimer interface [polypeptide binding]; other site 994484010518 putative CheW interface [polypeptide binding]; other site 994484010519 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484010520 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484010521 Walker A/P-loop; other site 994484010522 ATP binding site [chemical binding]; other site 994484010523 Q-loop/lid; other site 994484010524 ABC transporter signature motif; other site 994484010525 Walker B; other site 994484010526 D-loop; other site 994484010527 H-loop/switch region; other site 994484010528 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484010529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484010530 dimer interface [polypeptide binding]; other site 994484010531 conserved gate region; other site 994484010532 putative PBP binding loops; other site 994484010533 ABC-ATPase subunit interface; other site 994484010534 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484010535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484010536 dimer interface [polypeptide binding]; other site 994484010537 conserved gate region; other site 994484010538 putative PBP binding loops; other site 994484010539 ABC-ATPase subunit interface; other site 994484010540 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484010541 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484010542 substrate binding pocket [chemical binding]; other site 994484010543 membrane-bound complex binding site; other site 994484010544 hinge residues; other site 994484010545 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 994484010546 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 994484010547 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 994484010548 homodimer interface [polypeptide binding]; other site 994484010549 substrate-cofactor binding pocket; other site 994484010550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010551 catalytic residue [active] 994484010552 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 994484010553 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484010554 NAD(P) binding site [chemical binding]; other site 994484010555 catalytic residues [active] 994484010556 homoserine dehydrogenase; Provisional; Region: PRK06270 994484010557 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 994484010558 NAD(P) binding pocket [chemical binding]; other site 994484010559 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 994484010560 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484010561 putative DNA binding site [nucleotide binding]; other site 994484010562 dimerization interface [polypeptide binding]; other site 994484010563 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 994484010564 putative Zn2+ binding site [ion binding]; other site 994484010565 AsnC family; Region: AsnC_trans_reg; pfam01037 994484010566 threonine synthase; Validated; Region: PRK09225 994484010567 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 994484010568 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484010569 catalytic residue [active] 994484010570 DinB family; Region: DinB; cl17821 994484010571 DinB superfamily; Region: DinB_2; pfam12867 994484010572 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484010573 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484010574 inhibitor site; inhibition site 994484010575 active site 994484010576 dimer interface [polypeptide binding]; other site 994484010577 catalytic residue [active] 994484010578 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 994484010579 B3/4 domain; Region: B3_4; pfam03483 994484010580 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 994484010581 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 994484010582 non-specific DNA binding site [nucleotide binding]; other site 994484010583 salt bridge; other site 994484010584 sequence-specific DNA binding site [nucleotide binding]; other site 994484010585 Cupin domain; Region: Cupin_2; pfam07883 994484010586 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484010587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010588 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484010589 dimerization interface [polypeptide binding]; other site 994484010590 substrate binding pocket [chemical binding]; other site 994484010591 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484010592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484010593 NAD(P) binding site [chemical binding]; other site 994484010594 active site 994484010595 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010596 D-galactonate transporter; Region: 2A0114; TIGR00893 994484010597 putative substrate translocation pore; other site 994484010598 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 994484010599 TPP-binding site [chemical binding]; other site 994484010600 dimer interface [polypeptide binding]; other site 994484010601 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 994484010602 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 994484010603 PYR/PP interface [polypeptide binding]; other site 994484010604 dimer interface [polypeptide binding]; other site 994484010605 TPP binding site [chemical binding]; other site 994484010606 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484010607 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 994484010608 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484010609 Soluble P-type ATPase [General function prediction only]; Region: COG4087 994484010610 Hemerythrin-like domain; Region: Hr-like; cd12108 994484010611 Fe binding site [ion binding]; other site 994484010612 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 994484010613 BON domain; Region: BON; pfam04972 994484010614 BON domain; Region: BON; pfam04972 994484010615 BON domain; Region: BON; pfam04972 994484010616 Erythromycin esterase; Region: Erythro_esteras; pfam05139 994484010617 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484010618 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484010619 active site 994484010620 universal stress protein UspE; Provisional; Region: PRK11175 994484010621 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 994484010622 Ligand Binding Site [chemical binding]; other site 994484010623 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 994484010624 Ligand Binding Site [chemical binding]; other site 994484010625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484010626 active site 994484010627 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 994484010628 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 994484010629 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484010630 active site 994484010631 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 994484010632 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 994484010633 active site 994484010634 motif I; other site 994484010635 motif II; other site 994484010636 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 994484010637 active site 994484010638 motif I; other site 994484010639 motif II; other site 994484010640 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 994484010641 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 994484010642 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 994484010643 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484010644 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 994484010645 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484010646 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484010647 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 994484010648 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 994484010649 inhibitor-cofactor binding pocket; inhibition site 994484010650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010651 catalytic residue [active] 994484010652 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484010653 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484010654 NAD(P) binding site [chemical binding]; other site 994484010655 catalytic residues [active] 994484010656 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 994484010657 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 994484010658 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 994484010659 NADP binding site [chemical binding]; other site 994484010660 dimer interface [polypeptide binding]; other site 994484010661 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 994484010662 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 994484010663 dimer interface [polypeptide binding]; other site 994484010664 active site 994484010665 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 994484010666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484010667 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484010668 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484010669 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 994484010670 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 994484010671 classical (c) SDRs; Region: SDR_c; cd05233 994484010672 NAD(P) binding site [chemical binding]; other site 994484010673 active site 994484010674 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 994484010675 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 994484010676 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 994484010677 active site 994484010678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484010679 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484010680 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 994484010681 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484010682 putative metal binding site [ion binding]; other site 994484010683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010685 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 994484010686 putative dimerization interface [polypeptide binding]; other site 994484010687 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484010688 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 994484010689 substrate binding pocket [chemical binding]; other site 994484010690 membrane-bound complex binding site; other site 994484010691 hinge residues; other site 994484010692 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484010693 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484010694 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484010695 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 994484010696 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 994484010697 TPR repeat; Region: TPR_11; pfam13414 994484010698 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 994484010699 TPR motif; other site 994484010700 binding surface 994484010701 circadian clock protein KaiC; Reviewed; Region: PRK09302 994484010702 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484010703 Walker A motif; other site 994484010704 ATP binding site [chemical binding]; other site 994484010705 Walker B motif; other site 994484010706 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484010707 Walker A motif; other site 994484010708 ATP binding site [chemical binding]; other site 994484010709 Walker B motif; other site 994484010710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 994484010711 dimer interface [polypeptide binding]; other site 994484010712 phosphorylation site [posttranslational modification] 994484010713 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 994484010714 ATP binding site [chemical binding]; other site 994484010715 Mg2+ binding site [ion binding]; other site 994484010716 G-X-G motif; other site 994484010717 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484010718 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 994484010719 active site 994484010720 phosphorylation site [posttranslational modification] 994484010721 intermolecular recognition site; other site 994484010722 dimerization interface [polypeptide binding]; other site 994484010723 Response regulator receiver domain; Region: Response_reg; pfam00072 994484010724 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 994484010725 active site 994484010726 phosphorylation site [posttranslational modification] 994484010727 intermolecular recognition site; other site 994484010728 dimerization interface [polypeptide binding]; other site 994484010729 Response regulator receiver domain; Region: Response_reg; pfam00072 994484010730 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 994484010731 active site 994484010732 phosphorylation site [posttranslational modification] 994484010733 intermolecular recognition site; other site 994484010734 dimerization interface [polypeptide binding]; other site 994484010735 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484010736 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484010737 dimer interface [polypeptide binding]; other site 994484010738 phosphorylation site [posttranslational modification] 994484010739 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 994484010740 ATP binding site [chemical binding]; other site 994484010741 Mg2+ binding site [ion binding]; other site 994484010742 G-X-G motif; other site 994484010743 CheB methylesterase; Region: CheB_methylest; pfam01339 994484010744 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484010745 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 994484010746 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 994484010747 CHASE3 domain; Region: CHASE3; pfam05227 994484010748 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484010749 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 994484010750 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 994484010751 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 994484010752 ATP binding site [chemical binding]; other site 994484010753 Mg2+ binding site [ion binding]; other site 994484010754 G-X-G motif; other site 994484010755 Response regulator receiver domain; Region: Response_reg; pfam00072 994484010756 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 994484010757 active site 994484010758 phosphorylation site [posttranslational modification] 994484010759 intermolecular recognition site; other site 994484010760 dimerization interface [polypeptide binding]; other site 994484010761 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484010762 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 994484010763 active site 994484010764 phosphorylation site [posttranslational modification] 994484010765 intermolecular recognition site; other site 994484010766 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484010767 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 994484010768 active site 994484010769 phosphorylation site [posttranslational modification] 994484010770 intermolecular recognition site; other site 994484010771 dimerization interface [polypeptide binding]; other site 994484010772 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484010773 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 994484010774 active site 994484010775 phosphorylation site [posttranslational modification] 994484010776 intermolecular recognition site; other site 994484010777 dimerization interface [polypeptide binding]; other site 994484010778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484010779 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 994484010780 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484010781 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484010782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484010784 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484010785 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 994484010786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484010787 putative PBP binding loops; other site 994484010788 ABC-ATPase subunit interface; other site 994484010789 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484010790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484010791 dimer interface [polypeptide binding]; other site 994484010792 conserved gate region; other site 994484010793 putative PBP binding loops; other site 994484010794 ABC-ATPase subunit interface; other site 994484010795 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 994484010796 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 994484010797 Walker A/P-loop; other site 994484010798 ATP binding site [chemical binding]; other site 994484010799 Q-loop/lid; other site 994484010800 ABC transporter signature motif; other site 994484010801 Walker B; other site 994484010802 D-loop; other site 994484010803 H-loop/switch region; other site 994484010804 TOBE domain; Region: TOBE_2; pfam08402 994484010805 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 994484010806 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 994484010807 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 994484010808 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 994484010809 N- and C-terminal domain interface [polypeptide binding]; other site 994484010810 D-xylulose kinase; Region: XylB; TIGR01312 994484010811 active site 994484010812 MgATP binding site [chemical binding]; other site 994484010813 catalytic site [active] 994484010814 metal binding site [ion binding]; metal-binding site 994484010815 xylulose binding site [chemical binding]; other site 994484010816 putative homodimer interface [polypeptide binding]; other site 994484010817 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 994484010818 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484010819 putative substrate binding site [chemical binding]; other site 994484010820 putative ATP binding site [chemical binding]; other site 994484010821 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 994484010822 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 994484010823 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 994484010824 tetramer interface [polypeptide binding]; other site 994484010825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484010826 catalytic residue [active] 994484010827 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 994484010828 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 994484010829 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 994484010830 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 994484010831 putative DNA binding site [nucleotide binding]; other site 994484010832 putative homodimer interface [polypeptide binding]; other site 994484010833 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 994484010834 active site 994484010835 DNA binding site [nucleotide binding] 994484010836 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 994484010837 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 994484010838 DNA binding site [nucleotide binding] 994484010839 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 994484010840 nucleotide binding site [chemical binding]; other site 994484010841 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 994484010842 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 994484010843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484010844 Walker A/P-loop; other site 994484010845 ATP binding site [chemical binding]; other site 994484010846 Q-loop/lid; other site 994484010847 ABC transporter signature motif; other site 994484010848 Walker B; other site 994484010849 D-loop; other site 994484010850 H-loop/switch region; other site 994484010851 ABC transporter; Region: ABC_tran_2; pfam12848 994484010852 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484010853 major facilitator superfamily transporter; Provisional; Region: PRK05122 994484010854 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484010855 azoreductase; Reviewed; Region: PRK00170 994484010856 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484010857 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484010858 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 994484010859 dimerization interface [polypeptide binding]; other site 994484010860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 994484010861 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 994484010862 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 994484010863 Cache domain; Region: Cache_2; pfam08269 994484010864 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484010865 dimerization interface [polypeptide binding]; other site 994484010866 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484010868 dimer interface [polypeptide binding]; other site 994484010869 putative CheW interface [polypeptide binding]; other site 994484010870 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 994484010871 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 994484010872 AAA domain; Region: AAA_28; pfam13521 994484010873 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 994484010874 putative active site [active] 994484010875 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 994484010876 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484010877 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484010878 Walker A motif; other site 994484010879 ATP binding site [chemical binding]; other site 994484010880 Walker B motif; other site 994484010881 arginine finger; other site 994484010882 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484010883 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010884 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010885 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010886 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010887 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 994484010888 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 994484010889 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 994484010890 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 994484010891 active site 994484010892 motif I; other site 994484010893 motif II; other site 994484010894 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 994484010895 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 994484010896 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 994484010897 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 994484010898 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 994484010899 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 994484010900 hypothetical protein; Provisional; Region: PRK10649 994484010901 Sulfatase; Region: Sulfatase; pfam00884 994484010902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484010903 Coenzyme A binding pocket [chemical binding]; other site 994484010904 Predicted ATPase [General function prediction only]; Region: COG1485 994484010905 SnoaL-like domain; Region: SnoaL_2; pfam12680 994484010906 Predicted transcriptional regulator [Transcription]; Region: COG2378 994484010907 HTH domain; Region: HTH_11; pfam08279 994484010908 WYL domain; Region: WYL; pfam13280 994484010909 Water Stress and Hypersensitive response; Region: WHy; smart00769 994484010910 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 994484010911 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484010912 putative active site [active] 994484010913 catalytic triad [active] 994484010914 putative dimer interface [polypeptide binding]; other site 994484010915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484010916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484010917 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 994484010918 putative substrate binding pocket [chemical binding]; other site 994484010919 putative dimerization interface [polypeptide binding]; other site 994484010920 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 994484010921 feruloyl-CoA synthase; Reviewed; Region: PRK08180 994484010922 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 994484010923 acyl-activating enzyme (AAE) consensus motif; other site 994484010924 putative AMP binding site [chemical binding]; other site 994484010925 putative active site [active] 994484010926 putative CoA binding site [chemical binding]; other site 994484010927 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484010928 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 994484010929 NAD(P) binding site [chemical binding]; other site 994484010930 catalytic residues [active] 994484010931 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 994484010932 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 994484010933 substrate binding site [chemical binding]; other site 994484010934 oxyanion hole (OAH) forming residues; other site 994484010935 trimer interface [polypeptide binding]; other site 994484010936 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484010937 MarR family; Region: MarR_2; pfam12802 994484010938 outer membrane porin, OprD family; Region: OprD; pfam03573 994484010939 benzoate transport; Region: 2A0115; TIGR00895 994484010940 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010941 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484010942 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484010943 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484010944 dimer interface [polypeptide binding]; other site 994484010945 putative CheW interface [polypeptide binding]; other site 994484010946 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 994484010947 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 994484010948 FeS/SAM binding site; other site 994484010949 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 994484010950 ATP cone domain; Region: ATP-cone; pfam03477 994484010951 Class III ribonucleotide reductase; Region: RNR_III; cd01675 994484010952 effector binding site; other site 994484010953 active site 994484010954 Zn binding site [ion binding]; other site 994484010955 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 994484010956 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 994484010957 FeS/SAM binding site; other site 994484010958 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 994484010959 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 994484010960 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 994484010961 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 994484010962 nitrate reductase, beta subunit; Region: narH; TIGR01660 994484010963 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 994484010964 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 994484010965 [4Fe-4S] binding site [ion binding]; other site 994484010966 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 994484010967 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 994484010968 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 994484010969 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 994484010970 molybdopterin cofactor binding site; other site 994484010971 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 994484010972 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 994484010973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484010974 putative substrate translocation pore; other site 994484010975 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 994484010976 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 994484010977 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484010978 dimerization interface [polypeptide binding]; other site 994484010979 Histidine kinase; Region: HisKA_3; pfam07730 994484010980 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 994484010981 ATP binding site [chemical binding]; other site 994484010982 Mg2+ binding site [ion binding]; other site 994484010983 G-X-G motif; other site 994484010984 transcriptional regulator NarL; Provisional; Region: PRK10651 994484010985 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 994484010986 active site 994484010987 phosphorylation site [posttranslational modification] 994484010988 intermolecular recognition site; other site 994484010989 dimerization interface [polypeptide binding]; other site 994484010990 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484010991 DNA binding residues [nucleotide binding] 994484010992 dimerization interface [polypeptide binding]; other site 994484010993 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484010994 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 994484010995 ligand binding site [chemical binding]; other site 994484010996 flexible hinge region; other site 994484010997 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 994484010998 putative switch regulator; other site 994484010999 non-specific DNA interactions [nucleotide binding]; other site 994484011000 DNA binding site [nucleotide binding] 994484011001 sequence specific DNA binding site [nucleotide binding]; other site 994484011002 putative cAMP binding site [chemical binding]; other site 994484011003 Uncharacterized conserved protein [Function unknown]; Region: COG4273 994484011004 SCP-2 sterol transfer family; Region: SCP2; cl01225 994484011005 putative protease; Provisional; Region: PRK15447 994484011006 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 994484011007 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 994484011008 Peptidase family U32; Region: Peptidase_U32; pfam01136 994484011009 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 994484011010 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 994484011011 dimer interface [polypeptide binding]; other site 994484011012 putative functional site; other site 994484011013 putative MPT binding site; other site 994484011014 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 994484011015 MPT binding site; other site 994484011016 trimer interface [polypeptide binding]; other site 994484011017 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 994484011018 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 994484011019 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 994484011020 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 994484011021 GAF domain; Region: GAF; pfam01590 994484011022 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484011023 Walker A motif; other site 994484011024 ATP binding site [chemical binding]; other site 994484011025 Walker B motif; other site 994484011026 arginine finger; other site 994484011027 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 994484011028 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 994484011029 Hemerythrin-like domain; Region: Hr-like; cd12108 994484011030 Fe binding site [ion binding]; other site 994484011031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 994484011032 NnrS protein; Region: NnrS; pfam05940 994484011033 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 994484011034 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 994484011035 ligand binding site [chemical binding]; other site 994484011036 flexible hinge region; other site 994484011037 putative switch regulator; other site 994484011038 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 994484011039 non-specific DNA interactions [nucleotide binding]; other site 994484011040 DNA binding site [nucleotide binding] 994484011041 sequence specific DNA binding site [nucleotide binding]; other site 994484011042 putative cAMP binding site [chemical binding]; other site 994484011043 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 994484011044 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 994484011045 metal ion-dependent adhesion site (MIDAS); other site 994484011046 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 994484011047 Low-spin heme binding site [chemical binding]; other site 994484011048 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 994484011049 D-pathway; other site 994484011050 Binuclear center (active site) [active] 994484011051 K-pathway; other site 994484011052 Putative proton exit pathway; other site 994484011053 Putative water exit pathway; other site 994484011054 Cytochrome c; Region: Cytochrom_C; pfam00034 994484011055 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 994484011056 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 994484011057 Subunit I/III interface [polypeptide binding]; other site 994484011058 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484011059 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484011060 Walker A motif; other site 994484011061 ATP binding site [chemical binding]; other site 994484011062 Walker B motif; other site 994484011063 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 994484011064 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484011065 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 994484011066 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 994484011067 Cytochrome c; Region: Cytochrom_C; cl11414 994484011068 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484011069 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 994484011070 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 994484011071 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484011072 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484011073 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484011074 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 994484011075 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484011076 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 994484011077 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 994484011078 FeS/SAM binding site; other site 994484011079 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 994484011080 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 994484011081 active site 994484011082 SAM binding site [chemical binding]; other site 994484011083 homodimer interface [polypeptide binding]; other site 994484011084 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484011085 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 994484011086 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 994484011087 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 994484011088 structural tetrad; other site 994484011089 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 994484011090 Gram-negative porin; Region: Porin_4; pfam13609 994484011091 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 994484011092 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 994484011093 active site 994484011094 tetramer interface [polypeptide binding]; other site 994484011095 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484011096 D-galactonate transporter; Region: 2A0114; TIGR00893 994484011097 putative substrate translocation pore; other site 994484011098 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 994484011099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484011100 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 994484011101 putative dimerization interface [polypeptide binding]; other site 994484011102 putative substrate binding pocket [chemical binding]; other site 994484011103 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 994484011104 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 994484011105 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484011107 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 994484011108 putative effector binding pocket; other site 994484011109 dimerization interface [polypeptide binding]; other site 994484011110 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 994484011111 active site 1 [active] 994484011112 dimer interface [polypeptide binding]; other site 994484011113 hexamer interface [polypeptide binding]; other site 994484011114 active site 2 [active] 994484011115 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484011116 classical (c) SDRs; Region: SDR_c; cd05233 994484011117 NAD(P) binding site [chemical binding]; other site 994484011118 active site 994484011119 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484011120 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 994484011121 N-terminal plug; other site 994484011122 ligand-binding site [chemical binding]; other site 994484011123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484011124 DNA-binding site [nucleotide binding]; DNA binding site 994484011125 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 994484011126 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 994484011127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484011128 homodimer interface [polypeptide binding]; other site 994484011129 catalytic residue [active] 994484011130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484011131 putative substrate translocation pore; other site 994484011132 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484011133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484011134 DNA-binding site [nucleotide binding]; DNA binding site 994484011135 FCD domain; Region: FCD; pfam07729 994484011136 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 994484011137 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 994484011138 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484011139 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484011140 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484011141 PAS fold; Region: PAS_4; pfam08448 994484011142 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 994484011143 putative active site [active] 994484011144 heme pocket [chemical binding]; other site 994484011145 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484011146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011147 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484011148 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484011149 substrate binding pocket [chemical binding]; other site 994484011150 membrane-bound complex binding site; other site 994484011151 hinge residues; other site 994484011152 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 994484011153 substrate binding site [chemical binding]; other site 994484011154 Protein of unknown function (DUF521); Region: DUF521; pfam04412 994484011155 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 994484011156 substrate binding site [chemical binding]; other site 994484011157 ligand binding site [chemical binding]; other site 994484011158 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484011159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484011160 dimer interface [polypeptide binding]; other site 994484011161 conserved gate region; other site 994484011162 putative PBP binding loops; other site 994484011163 ABC-ATPase subunit interface; other site 994484011164 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484011165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484011166 dimer interface [polypeptide binding]; other site 994484011167 conserved gate region; other site 994484011168 putative PBP binding loops; other site 994484011169 ABC-ATPase subunit interface; other site 994484011170 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484011171 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484011172 Walker A/P-loop; other site 994484011173 ATP binding site [chemical binding]; other site 994484011174 Q-loop/lid; other site 994484011175 ABC transporter signature motif; other site 994484011176 Walker B; other site 994484011177 D-loop; other site 994484011178 H-loop/switch region; other site 994484011179 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 994484011180 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 994484011181 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484011182 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484011183 inhibitor site; inhibition site 994484011184 active site 994484011185 dimer interface [polypeptide binding]; other site 994484011186 catalytic residue [active] 994484011187 DinB family; Region: DinB; cl17821 994484011188 DinB superfamily; Region: DinB_2; pfam12867 994484011189 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 994484011190 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 994484011191 putative NAD(P) binding site [chemical binding]; other site 994484011192 catalytic Zn binding site [ion binding]; other site 994484011193 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 994484011194 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 994484011195 E3 interaction surface; other site 994484011196 lipoyl attachment site [posttranslational modification]; other site 994484011197 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 994484011198 catalytic site [active] 994484011199 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 994484011200 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 994484011201 alpha subunit interface [polypeptide binding]; other site 994484011202 TPP binding site [chemical binding]; other site 994484011203 heterodimer interface [polypeptide binding]; other site 994484011204 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484011205 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 994484011206 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 994484011207 tetramer interface [polypeptide binding]; other site 994484011208 TPP-binding site [chemical binding]; other site 994484011209 heterodimer interface [polypeptide binding]; other site 994484011210 phosphorylation loop region [posttranslational modification] 994484011211 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 994484011212 ATP-NAD kinase; Region: NAD_kinase; pfam01513 994484011213 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484011214 PAS domain; Region: PAS; smart00091 994484011215 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484011216 Walker A motif; other site 994484011217 ATP binding site [chemical binding]; other site 994484011218 Walker B motif; other site 994484011219 arginine finger; other site 994484011220 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 994484011221 DNA-binding interface [nucleotide binding]; DNA binding site 994484011222 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 994484011223 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 994484011224 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 994484011225 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 994484011226 catalytic residues [active] 994484011227 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484011228 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 994484011229 osmolarity response regulator; Provisional; Region: ompR; PRK09468 994484011230 active site 994484011231 phosphorylation site [posttranslational modification] 994484011232 intermolecular recognition site; other site 994484011233 dimerization interface [polypeptide binding]; other site 994484011234 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484011235 DNA binding site [nucleotide binding] 994484011236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484011237 HAMP domain; Region: HAMP; pfam00672 994484011238 dimerization interface [polypeptide binding]; other site 994484011239 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 994484011240 dimer interface [polypeptide binding]; other site 994484011241 phosphorylation site [posttranslational modification] 994484011242 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 994484011243 ATP binding site [chemical binding]; other site 994484011244 Mg2+ binding site [ion binding]; other site 994484011245 G-X-G motif; other site 994484011246 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 994484011247 thiamine pyrophosphate protein; Provisional; Region: PRK08273 994484011248 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 994484011249 PYR/PP interface [polypeptide binding]; other site 994484011250 dimer interface [polypeptide binding]; other site 994484011251 tetramer interface [polypeptide binding]; other site 994484011252 TPP binding site [chemical binding]; other site 994484011253 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484011254 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 994484011255 TPP-binding site [chemical binding]; other site 994484011256 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 994484011257 CHASE4 domain; Region: CHASE4; pfam05228 994484011258 PAS domain S-box; Region: sensory_box; TIGR00229 994484011259 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 994484011260 putative active site [active] 994484011261 heme pocket [chemical binding]; other site 994484011262 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484011263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484011264 metal binding site [ion binding]; metal-binding site 994484011265 active site 994484011266 I-site; other site 994484011267 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 994484011268 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 994484011269 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 994484011270 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 994484011271 type II secretion system protein F; Region: GspF; TIGR02120 994484011272 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 994484011273 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 994484011274 type II secretion system protein E; Region: type_II_gspE; TIGR02533 994484011275 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 994484011276 Walker A motif; other site 994484011277 ATP binding site [chemical binding]; other site 994484011278 Walker B motif; other site 994484011279 type II secretion system protein D; Region: type_II_gspD; TIGR02517 994484011280 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484011281 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484011282 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484011283 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 994484011284 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 994484011285 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 994484011286 GspL periplasmic domain; Region: GspL_C; cl14909 994484011287 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 994484011288 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 994484011289 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 994484011290 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 994484011291 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 994484011292 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 994484011293 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 994484011294 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 994484011295 Type II transport protein GspH; Region: GspH; pfam12019 994484011296 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 994484011297 type II secretion system protein J; Region: gspJ; TIGR01711 994484011298 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 994484011299 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484011300 FecR protein; Region: FecR; pfam04773 994484011301 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 994484011302 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484011303 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484011304 TonB C terminal; Region: TonB_2; pfam13103 994484011305 Uncharacterized conserved protein [Function unknown]; Region: COG2128 994484011306 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 994484011307 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 994484011308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484011309 DNA-binding site [nucleotide binding]; DNA binding site 994484011310 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 994484011311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484011312 homodimer interface [polypeptide binding]; other site 994484011313 catalytic residue [active] 994484011314 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 994484011315 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 994484011316 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 994484011317 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484011318 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484011319 DNA binding site [nucleotide binding] 994484011320 domain linker motif; other site 994484011321 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 994484011322 putative dimerization interface [polypeptide binding]; other site 994484011323 putative ligand binding site [chemical binding]; other site 994484011324 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 994484011325 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484011326 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 994484011327 substrate binding site [chemical binding]; other site 994484011328 ATP binding site [chemical binding]; other site 994484011329 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484011330 D-galactonate transporter; Region: 2A0114; TIGR00893 994484011331 putative substrate translocation pore; other site 994484011332 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 994484011333 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 994484011334 dimerization interface [polypeptide binding]; other site 994484011335 ligand binding site [chemical binding]; other site 994484011336 NADP binding site [chemical binding]; other site 994484011337 catalytic site [active] 994484011338 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484011339 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484011340 Walker A motif; other site 994484011341 ATP binding site [chemical binding]; other site 994484011342 Walker B motif; other site 994484011343 arginine finger; other site 994484011344 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 994484011345 Protein of unknown function DUF58; Region: DUF58; pfam01882 994484011346 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 994484011347 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 994484011348 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...; Region: vWA_BatA_type; cd01467 994484011349 metal ion-dependent adhesion site (MIDAS); other site 994484011350 von Willebrand factor type A domain; Region: VWA_2; pfam13519 994484011351 metal ion-dependent adhesion site (MIDAS); other site 994484011352 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 994484011353 Tetratricopeptide repeat; Region: TPR_16; pfam13432 994484011354 TPR motif; other site 994484011355 binding surface 994484011356 Oxygen tolerance; Region: BatD; pfam13584 994484011357 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 994484011358 exonuclease subunit SbcD; Provisional; Region: PRK10966 994484011359 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 994484011360 active site 994484011361 metal binding site [ion binding]; metal-binding site 994484011362 DNA binding site [nucleotide binding] 994484011363 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 994484011364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484011365 AAA domain; Region: AAA_23; pfam13476 994484011366 Walker A/P-loop; other site 994484011367 ATP binding site [chemical binding]; other site 994484011368 Q-loop/lid; other site 994484011369 exonuclease subunit SbcC; Provisional; Region: PRK10246 994484011370 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484011371 ABC transporter signature motif; other site 994484011372 Walker B; other site 994484011373 D-loop; other site 994484011374 H-loop/switch region; other site 994484011375 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484011376 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484011377 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 994484011378 putative N-terminal domain interface [polypeptide binding]; other site 994484011379 putative dimer interface [polypeptide binding]; other site 994484011380 putative substrate binding pocket (H-site) [chemical binding]; other site 994484011381 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 994484011382 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 994484011383 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 994484011384 dimer interface [polypeptide binding]; other site 994484011385 NADP binding site [chemical binding]; other site 994484011386 catalytic residues [active] 994484011387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 994484011388 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 994484011389 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484011390 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484011391 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484011392 putative substrate translocation pore; other site 994484011393 dihydroxy-acid dehydratase; Validated; Region: PRK06131 994484011394 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484011395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484011396 DNA-binding site [nucleotide binding]; DNA binding site 994484011397 FCD domain; Region: FCD; pfam07729 994484011398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484011399 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484011400 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484011401 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 994484011402 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 994484011403 aminopeptidase N; Provisional; Region: pepN; PRK14015 994484011404 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 994484011405 active site 994484011406 Zn binding site [ion binding]; other site 994484011407 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 994484011408 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 994484011409 Rhomboid family; Region: Rhomboid; pfam01694 994484011410 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 994484011411 active site 994484011412 metal binding site [ion binding]; metal-binding site 994484011413 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 994484011414 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 994484011415 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 994484011416 arsenical pump membrane protein; Provisional; Region: PRK15445 994484011417 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 994484011418 transmembrane helices; other site 994484011419 Predicted flavoprotein [General function prediction only]; Region: COG0431 994484011420 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484011421 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 994484011422 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 994484011423 dimerization interface [polypeptide binding]; other site 994484011424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484011425 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484011426 Coenzyme A binding pocket [chemical binding]; other site 994484011427 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 994484011428 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 994484011429 active site 994484011430 catalytic site [active] 994484011431 substrate binding site [chemical binding]; other site 994484011432 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 994484011433 RNA/DNA hybrid binding site [nucleotide binding]; other site 994484011434 active site 994484011435 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484011436 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 994484011437 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 994484011438 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 994484011439 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484011440 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484011441 catalytic residue [active] 994484011442 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484011443 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484011444 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 994484011445 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 994484011446 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 994484011447 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 994484011448 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 994484011449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484011450 dimer interface [polypeptide binding]; other site 994484011451 conserved gate region; other site 994484011452 putative PBP binding loops; other site 994484011453 ABC-ATPase subunit interface; other site 994484011454 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 994484011455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484011456 dimer interface [polypeptide binding]; other site 994484011457 conserved gate region; other site 994484011458 putative PBP binding loops; other site 994484011459 ABC-ATPase subunit interface; other site 994484011460 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 994484011461 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484011462 Walker A/P-loop; other site 994484011463 ATP binding site [chemical binding]; other site 994484011464 Q-loop/lid; other site 994484011465 ABC transporter signature motif; other site 994484011466 Walker B; other site 994484011467 D-loop; other site 994484011468 H-loop/switch region; other site 994484011469 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484011470 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484011471 Walker A/P-loop; other site 994484011472 ATP binding site [chemical binding]; other site 994484011473 Q-loop/lid; other site 994484011474 ABC transporter signature motif; other site 994484011475 Walker B; other site 994484011476 D-loop; other site 994484011477 H-loop/switch region; other site 994484011478 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484011479 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 994484011480 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 994484011481 NAD binding site [chemical binding]; other site 994484011482 homotetramer interface [polypeptide binding]; other site 994484011483 homodimer interface [polypeptide binding]; other site 994484011484 substrate binding site [chemical binding]; other site 994484011485 active site 994484011486 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484011487 GAF domain; Region: GAF; pfam01590 994484011488 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484011489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484011490 metal binding site [ion binding]; metal-binding site 994484011491 active site 994484011492 I-site; other site 994484011493 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484011494 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484011495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011497 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484011498 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 994484011499 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 994484011500 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 994484011501 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 994484011502 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 994484011503 DNA binding site [nucleotide binding] 994484011504 active site 994484011505 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 994484011506 endonuclease III; Region: ENDO3c; smart00478 994484011507 minor groove reading motif; other site 994484011508 helix-hairpin-helix signature motif; other site 994484011509 substrate binding pocket [chemical binding]; other site 994484011510 active site 994484011511 Uncharacterized conserved protein [Function unknown]; Region: COG3791 994484011512 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 994484011513 sensor protein RstB; Provisional; Region: PRK10604 994484011514 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484011515 dimerization interface [polypeptide binding]; other site 994484011516 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484011517 dimer interface [polypeptide binding]; other site 994484011518 phosphorylation site [posttranslational modification] 994484011519 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 994484011520 ATP binding site [chemical binding]; other site 994484011521 Mg2+ binding site [ion binding]; other site 994484011522 G-X-G motif; other site 994484011523 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 994484011524 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 994484011525 active site 994484011526 phosphorylation site [posttranslational modification] 994484011527 intermolecular recognition site; other site 994484011528 dimerization interface [polypeptide binding]; other site 994484011529 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484011530 DNA binding site [nucleotide binding] 994484011531 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 994484011532 active site 994484011533 dinuclear metal binding site [ion binding]; other site 994484011534 dimerization interface [polypeptide binding]; other site 994484011535 universal stress protein UspE; Provisional; Region: PRK11175 994484011536 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 994484011537 Ligand Binding Site [chemical binding]; other site 994484011538 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 994484011539 Ligand Binding Site [chemical binding]; other site 994484011540 Predicted Fe-S protein [General function prediction only]; Region: COG3313 994484011541 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 994484011542 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 994484011543 substrate binding site [chemical binding]; other site 994484011544 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 994484011545 substrate binding site [chemical binding]; other site 994484011546 ligand binding site [chemical binding]; other site 994484011547 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 994484011548 serine transporter; Region: stp; TIGR00814 994484011549 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 994484011550 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484011551 putative ligand binding site [chemical binding]; other site 994484011552 NAD binding site [chemical binding]; other site 994484011553 catalytic site [active] 994484011554 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 994484011555 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 994484011556 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 994484011557 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 994484011558 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 994484011559 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 994484011560 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 994484011561 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 994484011562 Protein of unknown function (DUF877); Region: DUF877; pfam05943 994484011563 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 994484011564 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 994484011565 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 994484011566 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 994484011567 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 994484011568 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 994484011569 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484011570 Walker A motif; other site 994484011571 ATP binding site [chemical binding]; other site 994484011572 Walker B motif; other site 994484011573 arginine finger; other site 994484011574 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484011575 Walker A motif; other site 994484011576 ATP binding site [chemical binding]; other site 994484011577 Walker B motif; other site 994484011578 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484011579 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484011580 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 994484011581 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 994484011582 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 994484011583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484011584 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 994484011585 Phosphotransferase enzyme family; Region: APH; pfam01636 994484011586 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 994484011587 putative active site [active] 994484011588 putative substrate binding site [chemical binding]; other site 994484011589 ATP binding site [chemical binding]; other site 994484011590 short chain dehydrogenase; Provisional; Region: PRK07035 994484011591 classical (c) SDRs; Region: SDR_c; cd05233 994484011592 NAD(P) binding site [chemical binding]; other site 994484011593 active site 994484011594 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484011595 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484011596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 994484011597 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 994484011598 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 994484011599 non-specific DNA binding site [nucleotide binding]; other site 994484011600 salt bridge; other site 994484011601 sequence-specific DNA binding site [nucleotide binding]; other site 994484011602 Cupin domain; Region: Cupin_2; pfam07883 994484011603 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484011604 EamA-like transporter family; Region: EamA; pfam00892 994484011605 EamA-like transporter family; Region: EamA; pfam00892 994484011606 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 994484011607 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 994484011608 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 994484011609 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 994484011610 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 994484011611 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 994484011612 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 994484011613 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 994484011614 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 994484011615 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 994484011616 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 994484011617 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 994484011618 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484011619 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484011620 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 994484011621 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484011622 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484011623 dimer interface [polypeptide binding]; other site 994484011624 putative CheW interface [polypeptide binding]; other site 994484011625 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 994484011626 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 994484011627 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 994484011628 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484011629 TM-ABC transporter signature motif; other site 994484011630 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 994484011631 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 994484011632 Walker A/P-loop; other site 994484011633 ATP binding site [chemical binding]; other site 994484011634 Q-loop/lid; other site 994484011635 ABC transporter signature motif; other site 994484011636 Walker B; other site 994484011637 D-loop; other site 994484011638 H-loop/switch region; other site 994484011639 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 994484011640 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 994484011641 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 994484011642 putative ligand binding site [chemical binding]; other site 994484011643 putative oxidoreductase; Provisional; Region: PRK11579 994484011644 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484011645 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484011646 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484011647 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484011648 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484011649 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 994484011650 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484011651 PYR/PP interface [polypeptide binding]; other site 994484011652 dimer interface [polypeptide binding]; other site 994484011653 TPP binding site [chemical binding]; other site 994484011654 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484011655 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 994484011656 TPP-binding site; other site 994484011657 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 994484011658 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 994484011659 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 994484011660 tetrameric interface [polypeptide binding]; other site 994484011661 NAD binding site [chemical binding]; other site 994484011662 catalytic residues [active] 994484011663 KduI/IolB family; Region: KduI; pfam04962 994484011664 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484011665 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484011666 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 994484011667 substrate binding site [chemical binding]; other site 994484011668 ATP binding site [chemical binding]; other site 994484011669 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 994484011670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 994484011671 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 994484011672 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 994484011673 putative active site [active] 994484011674 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484011675 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 994484011676 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 994484011677 dimer interface [polypeptide binding]; other site 994484011678 N-terminal domain interface [polypeptide binding]; other site 994484011679 putative substrate binding pocket (H-site) [chemical binding]; other site 994484011680 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 994484011681 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484011682 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 994484011683 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484011684 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484011685 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484011686 catalytic loop [active] 994484011687 iron binding site [ion binding]; other site 994484011688 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484011689 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 994484011690 active site 994484011691 phosphorylation site [posttranslational modification] 994484011692 intermolecular recognition site; other site 994484011693 dimerization interface [polypeptide binding]; other site 994484011694 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484011695 DNA binding site [nucleotide binding] 994484011696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484011697 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484011698 dimerization interface [polypeptide binding]; other site 994484011699 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484011700 dimer interface [polypeptide binding]; other site 994484011701 phosphorylation site [posttranslational modification] 994484011702 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 994484011703 ATP binding site [chemical binding]; other site 994484011704 Mg2+ binding site [ion binding]; other site 994484011705 G-X-G motif; other site 994484011706 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 994484011707 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484011708 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 994484011709 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484011710 putative active site [active] 994484011711 heme pocket [chemical binding]; other site 994484011712 PAS domain; Region: PAS; smart00091 994484011713 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484011714 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484011715 DNA binding residues [nucleotide binding] 994484011716 dimerization interface [polypeptide binding]; other site 994484011717 allantoate amidohydrolase; Reviewed; Region: PRK12893 994484011718 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 994484011719 active site 994484011720 metal binding site [ion binding]; metal-binding site 994484011721 dimer interface [polypeptide binding]; other site 994484011722 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 994484011723 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484011724 Na binding site [ion binding]; other site 994484011725 putative substrate binding site [chemical binding]; other site 994484011726 phenylhydantoinase; Validated; Region: PRK08323 994484011727 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 994484011728 tetramer interface [polypeptide binding]; other site 994484011729 active site 994484011730 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 994484011731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484011732 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 994484011733 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 994484011734 homodimer interface [polypeptide binding]; other site 994484011735 active site 994484011736 FMN binding site [chemical binding]; other site 994484011737 substrate binding site [chemical binding]; other site 994484011738 4Fe-4S binding domain; Region: Fer4; cl02805 994484011739 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 994484011740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484011741 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 994484011742 outer membrane porin, OprD family; Region: OprD; pfam03573 994484011743 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484011744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484011745 active site 994484011746 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 994484011747 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 994484011748 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 994484011749 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 994484011750 DctM-like transporters; Region: DctM; pfam06808 994484011751 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 994484011752 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 994484011753 active site 994484011754 catalytic residues [active] 994484011755 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484011756 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 994484011757 putative DNA binding site [nucleotide binding]; other site 994484011758 putative Zn2+ binding site [ion binding]; other site 994484011759 AsnC family; Region: AsnC_trans_reg; pfam01037 994484011760 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 994484011761 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 994484011762 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 994484011763 tetramer interface [polypeptide binding]; other site 994484011764 TPP-binding site [chemical binding]; other site 994484011765 heterodimer interface [polypeptide binding]; other site 994484011766 phosphorylation loop region [posttranslational modification] 994484011767 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 994484011768 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 994484011769 alpha subunit interface [polypeptide binding]; other site 994484011770 TPP binding site [chemical binding]; other site 994484011771 heterodimer interface [polypeptide binding]; other site 994484011772 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484011773 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 994484011774 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 994484011775 E3 interaction surface; other site 994484011776 lipoyl attachment site [posttranslational modification]; other site 994484011777 e3 binding domain; Region: E3_binding; pfam02817 994484011778 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 994484011779 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 994484011780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484011781 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484011782 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 994484011783 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 994484011784 homodimer interface [polypeptide binding]; other site 994484011785 substrate-cofactor binding pocket; other site 994484011786 catalytic residue [active] 994484011787 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484011788 EamA-like transporter family; Region: EamA; pfam00892 994484011789 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484011790 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484011791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011792 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 994484011793 dimerization interface [polypeptide binding]; other site 994484011794 putative DNA binding site [nucleotide binding]; other site 994484011795 putative Zn2+ binding site [ion binding]; other site 994484011796 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 994484011797 Cytochrome P450; Region: p450; cl12078 994484011798 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 994484011799 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484011800 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 994484011801 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 994484011802 active site 994484011803 Zn binding site [ion binding]; other site 994484011804 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 994484011805 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 994484011806 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 994484011807 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 994484011808 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 994484011809 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 994484011810 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484011811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484011812 metal binding site [ion binding]; metal-binding site 994484011813 active site 994484011814 I-site; other site 994484011815 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 994484011816 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 994484011817 Isochorismatase family; Region: Isochorismatase; pfam00857 994484011818 catalytic triad [active] 994484011819 metal binding site [ion binding]; metal-binding site 994484011820 conserved cis-peptide bond; other site 994484011821 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 994484011822 sensor protein RstB; Provisional; Region: PRK10604 994484011823 HAMP domain; Region: HAMP; pfam00672 994484011824 dimerization interface [polypeptide binding]; other site 994484011825 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484011826 dimer interface [polypeptide binding]; other site 994484011827 phosphorylation site [posttranslational modification] 994484011828 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 994484011829 ATP binding site [chemical binding]; other site 994484011830 Mg2+ binding site [ion binding]; other site 994484011831 G-X-G motif; other site 994484011832 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484011833 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 994484011834 active site 994484011835 phosphorylation site [posttranslational modification] 994484011836 intermolecular recognition site; other site 994484011837 dimerization interface [polypeptide binding]; other site 994484011838 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484011839 DNA binding site [nucleotide binding] 994484011840 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 994484011841 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484011842 Autotransporter beta-domain; Region: Autotransporter; pfam03797 994484011843 aspartate aminotransferase; Provisional; Region: PRK05764 994484011844 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 994484011845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484011846 homodimer interface [polypeptide binding]; other site 994484011847 catalytic residue [active] 994484011848 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484011849 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 994484011850 dimerization interface [polypeptide binding]; other site 994484011851 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484011852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484011853 dimer interface [polypeptide binding]; other site 994484011854 putative CheW interface [polypeptide binding]; other site 994484011855 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 994484011856 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 994484011857 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 994484011858 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 994484011859 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 994484011860 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484011861 putative substrate translocation pore; other site 994484011862 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484011863 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484011864 active site 994484011865 catalytic tetrad [active] 994484011866 Predicted permeases [General function prediction only]; Region: RarD; COG2962 994484011867 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 994484011868 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 994484011869 dimer interface [polypeptide binding]; other site 994484011870 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 994484011871 active site 994484011872 Fe binding site [ion binding]; other site 994484011873 EamA-like transporter family; Region: EamA; pfam00892 994484011874 EamA-like transporter family; Region: EamA; pfam00892 994484011875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484011876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484011877 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 994484011878 dimerization interface [polypeptide binding]; other site 994484011879 phage resistance protein; Provisional; Region: PRK10551 994484011880 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 994484011881 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 994484011882 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 994484011883 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484011884 dimer interface [polypeptide binding]; other site 994484011885 active site 994484011886 metal binding site [ion binding]; metal-binding site 994484011887 glutathione binding site [chemical binding]; other site 994484011888 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 994484011889 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 994484011890 catalytic residue [active] 994484011891 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 994484011892 catalytic residues [active] 994484011893 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484011894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484011895 peroxiredoxin; Region: AhpC; TIGR03137 994484011896 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 994484011897 dimer interface [polypeptide binding]; other site 994484011898 decamer (pentamer of dimers) interface [polypeptide binding]; other site 994484011899 catalytic triad [active] 994484011900 peroxidatic and resolving cysteines [active] 994484011901 glutathione reductase; Validated; Region: PRK06116 994484011902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484011903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484011904 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484011905 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 994484011906 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 994484011907 active site 994484011908 tetramer interface; other site 994484011909 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 994484011910 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 994484011911 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 994484011912 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 994484011913 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 994484011914 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 994484011915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484011916 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 994484011917 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 994484011918 DNA binding site [nucleotide binding] 994484011919 active site 994484011920 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 994484011921 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 994484011922 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 994484011923 FMN binding site [chemical binding]; other site 994484011924 substrate binding site [chemical binding]; other site 994484011925 putative catalytic residue [active] 994484011926 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 994484011927 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 994484011928 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 994484011929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484011930 dimer interface [polypeptide binding]; other site 994484011931 conserved gate region; other site 994484011932 putative PBP binding loops; other site 994484011933 ABC-ATPase subunit interface; other site 994484011934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484011935 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 994484011936 Walker A/P-loop; other site 994484011937 ATP binding site [chemical binding]; other site 994484011938 Q-loop/lid; other site 994484011939 ABC transporter signature motif; other site 994484011940 Walker B; other site 994484011941 D-loop; other site 994484011942 H-loop/switch region; other site 994484011943 TOBE domain; Region: TOBE; cl01440 994484011944 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 994484011945 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 of...; Region: Topo_IB_C; cd00659 994484011946 active site 994484011947 DNA binding site [nucleotide binding] 994484011948 Int/Topo IB signature motif; other site 994484011949 catalytic residues [active] 994484011950 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 994484011951 active site 994484011952 Low molecular weight phosphatase family; Region: LMWPc; cd00115 994484011953 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 994484011954 active site 994484011955 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 994484011956 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 994484011957 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 994484011958 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 994484011959 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 994484011960 active site 994484011961 motif I; other site 994484011962 motif II; other site 994484011963 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 994484011964 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 994484011965 Response regulator receiver domain; Region: Response_reg; pfam00072 994484011966 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 994484011967 active site 994484011968 phosphorylation site [posttranslational modification] 994484011969 intermolecular recognition site; other site 994484011970 dimerization interface [polypeptide binding]; other site 994484011971 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 994484011972 anti sigma factor interaction site; other site 994484011973 regulatory phosphorylation site [posttranslational modification]; other site 994484011974 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484011975 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 994484011976 putative binding surface; other site 994484011977 active site 994484011978 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484011979 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 994484011980 ATP binding site [chemical binding]; other site 994484011981 Mg2+ binding site [ion binding]; other site 994484011982 G-X-G motif; other site 994484011983 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 994484011984 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484011985 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484011986 dimerization interface [polypeptide binding]; other site 994484011987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484011988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484011989 dimer interface [polypeptide binding]; other site 994484011990 putative CheW interface [polypeptide binding]; other site 994484011991 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 994484011992 putative CheA interaction surface; other site 994484011993 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484011994 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 994484011995 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 994484011996 S-adenosylmethionine binding site [chemical binding]; other site 994484011997 CheD chemotactic sensory transduction; Region: CheD; cl00810 994484011998 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 994484011999 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 994484012000 active site 994484012001 phosphorylation site [posttranslational modification] 994484012002 intermolecular recognition site; other site 994484012003 dimerization interface [polypeptide binding]; other site 994484012004 CheB methylesterase; Region: CheB_methylest; pfam01339 994484012005 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 994484012006 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 994484012007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012008 dimer interface [polypeptide binding]; other site 994484012009 conserved gate region; other site 994484012010 putative PBP binding loops; other site 994484012011 ABC-ATPase subunit interface; other site 994484012012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012013 dimer interface [polypeptide binding]; other site 994484012014 conserved gate region; other site 994484012015 putative PBP binding loops; other site 994484012016 ABC-ATPase subunit interface; other site 994484012017 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 994484012018 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 994484012019 Walker A/P-loop; other site 994484012020 ATP binding site [chemical binding]; other site 994484012021 Q-loop/lid; other site 994484012022 ABC transporter signature motif; other site 994484012023 Walker B; other site 994484012024 D-loop; other site 994484012025 H-loop/switch region; other site 994484012026 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 994484012027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484012028 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484012029 dimer interface [polypeptide binding]; other site 994484012030 phosphorylation site [posttranslational modification] 994484012031 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 994484012032 ATP binding site [chemical binding]; other site 994484012033 Mg2+ binding site [ion binding]; other site 994484012034 G-X-G motif; other site 994484012035 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 994484012036 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 994484012037 active site 994484012038 phosphorylation site [posttranslational modification] 994484012039 intermolecular recognition site; other site 994484012040 dimerization interface [polypeptide binding]; other site 994484012041 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484012042 DNA binding residues [nucleotide binding] 994484012043 dimerization interface [polypeptide binding]; other site 994484012044 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 994484012045 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484012046 EamA-like transporter family; Region: EamA; pfam00892 994484012047 EamA-like transporter family; Region: EamA; pfam00892 994484012048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012050 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 994484012051 dimerization interface [polypeptide binding]; other site 994484012052 AAA domain; Region: AAA_21; pfam13304 994484012053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484012054 ABC transporter signature motif; other site 994484012055 Walker B; other site 994484012056 D-loop; other site 994484012057 H-loop/switch region; other site 994484012058 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 994484012059 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484012060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012061 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 994484012062 dimerization interface [polypeptide binding]; other site 994484012063 short chain dehydrogenase; Provisional; Region: PRK06523 994484012064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012065 NAD(P) binding site [chemical binding]; other site 994484012066 active site 994484012067 SnoaL-like domain; Region: SnoaL_2; pfam12680 994484012068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484012069 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484012070 DNA binding residues [nucleotide binding] 994484012071 dimerization interface [polypeptide binding]; other site 994484012072 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012073 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012074 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 994484012075 putative effector binding pocket; other site 994484012076 putative dimerization interface [polypeptide binding]; other site 994484012077 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 994484012078 HD domain; Region: HD_5; pfam13487 994484012079 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484012080 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484012081 DNA binding residues [nucleotide binding] 994484012082 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 994484012083 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484012084 choline dehydrogenase; Validated; Region: PRK02106 994484012085 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484012086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484012087 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484012088 Coenzyme A binding pocket [chemical binding]; other site 994484012089 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484012090 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 994484012091 oxidoreductase; Provisional; Region: PRK12742 994484012092 classical (c) SDRs; Region: SDR_c; cd05233 994484012093 NAD(P) binding site [chemical binding]; other site 994484012094 active site 994484012095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484012096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012097 classical (c) SDRs; Region: SDR_c; cd05233 994484012098 NAD(P) binding site [chemical binding]; other site 994484012099 active site 994484012100 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 994484012101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012103 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 994484012104 dimerization interface [polypeptide binding]; other site 994484012105 Protein of unknown function, DUF485; Region: DUF485; pfam04341 994484012106 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 994484012107 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 994484012108 Na binding site [ion binding]; other site 994484012109 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484012110 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 994484012111 putative active site [active] 994484012112 catalytic triad [active] 994484012113 putative dimer interface [polypeptide binding]; other site 994484012114 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 994484012115 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 994484012116 Mitochondrial resolvase Ydc2 / RNA splicing MRS1; Region: Ydc2-catalyt; pfam09159 994484012117 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 994484012118 motif II; other site 994484012119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012120 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 994484012121 putative effector binding pocket; other site 994484012122 putative dimerization interface [polypeptide binding]; other site 994484012123 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484012124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484012125 putative substrate translocation pore; other site 994484012126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012128 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 994484012129 dimerization interface [polypeptide binding]; other site 994484012130 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484012131 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484012132 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 994484012133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012135 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 994484012136 dimerization interface [polypeptide binding]; other site 994484012137 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 994484012138 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 994484012139 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 994484012140 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 994484012141 N-terminal plug; other site 994484012142 ligand-binding site [chemical binding]; other site 994484012143 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 994484012144 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 994484012145 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 994484012146 active site 994484012147 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484012148 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 994484012149 hinge residues; other site 994484012150 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 994484012151 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484012152 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484012153 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484012154 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484012155 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 994484012156 putative DNA binding site [nucleotide binding]; other site 994484012157 putative Zn2+ binding site [ion binding]; other site 994484012158 AsnC family; Region: AsnC_trans_reg; pfam01037 994484012159 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 994484012160 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 994484012161 inhibitor-cofactor binding pocket; inhibition site 994484012162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484012163 catalytic residue [active] 994484012164 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 994484012165 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 994484012166 putative ligand binding site [chemical binding]; other site 994484012167 NAD binding site [chemical binding]; other site 994484012168 dimerization interface [polypeptide binding]; other site 994484012169 catalytic site [active] 994484012170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484012171 Coenzyme A binding pocket [chemical binding]; other site 994484012172 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 994484012173 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 994484012174 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 994484012175 tartrate dehydrogenase; Region: TTC; TIGR02089 994484012176 succinic semialdehyde dehydrogenase; Region: PLN02278 994484012177 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484012178 tetramerization interface [polypeptide binding]; other site 994484012179 NAD(P) binding site [chemical binding]; other site 994484012180 catalytic residues [active] 994484012181 acetylornithine deacetylase; Provisional; Region: PRK07522 994484012182 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484012183 metal binding site [ion binding]; metal-binding site 994484012184 putative dimer interface [polypeptide binding]; other site 994484012185 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484012186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484012187 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484012188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 994484012189 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484012190 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 994484012191 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484012192 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 994484012193 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484012194 Walker A/P-loop; other site 994484012195 ATP binding site [chemical binding]; other site 994484012196 Q-loop/lid; other site 994484012197 ABC transporter signature motif; other site 994484012198 Walker B; other site 994484012199 D-loop; other site 994484012200 H-loop/switch region; other site 994484012201 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 994484012202 Walker A/P-loop; other site 994484012203 ATP binding site [chemical binding]; other site 994484012204 Q-loop/lid; other site 994484012205 ABC transporter signature motif; other site 994484012206 Walker B; other site 994484012207 D-loop; other site 994484012208 H-loop/switch region; other site 994484012209 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 994484012210 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 994484012211 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012212 dimer interface [polypeptide binding]; other site 994484012213 conserved gate region; other site 994484012214 ABC-ATPase subunit interface; other site 994484012215 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 994484012216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012217 dimer interface [polypeptide binding]; other site 994484012218 conserved gate region; other site 994484012219 putative PBP binding loops; other site 994484012220 ABC-ATPase subunit interface; other site 994484012221 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 994484012222 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484012223 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484012224 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484012225 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 994484012226 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 994484012227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012228 transcriptional activator TtdR; Provisional; Region: PRK09801 994484012229 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 994484012230 dimerization interface [polypeptide binding]; other site 994484012231 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 994484012232 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 994484012233 active site 994484012234 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484012235 dimer interface [polypeptide binding]; other site 994484012236 substrate binding site [chemical binding]; other site 994484012237 catalytic residue [active] 994484012238 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 994484012239 homotrimer interaction site [polypeptide binding]; other site 994484012240 putative active site [active] 994484012241 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484012242 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484012243 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 994484012244 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484012245 NAD binding site [chemical binding]; other site 994484012246 catalytic residues [active] 994484012247 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 994484012248 Uncharacterized conserved protein [Function unknown]; Region: COG3791 994484012249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012251 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 994484012252 putative effector binding pocket; other site 994484012253 putative dimerization interface [polypeptide binding]; other site 994484012254 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 994484012255 homotrimer interaction site [polypeptide binding]; other site 994484012256 putative active site [active] 994484012257 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 994484012258 dimer interface [polypeptide binding]; other site 994484012259 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 994484012260 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 994484012261 VacJ like lipoprotein; Region: VacJ; cl01073 994484012262 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484012263 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 994484012264 active site 994484012265 phosphorylation site [posttranslational modification] 994484012266 intermolecular recognition site; other site 994484012267 dimerization interface [polypeptide binding]; other site 994484012268 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484012269 DNA binding site [nucleotide binding] 994484012270 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484012271 dimerization interface [polypeptide binding]; other site 994484012272 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484012273 dimer interface [polypeptide binding]; other site 994484012274 phosphorylation site [posttranslational modification] 994484012275 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 994484012276 ATP binding site [chemical binding]; other site 994484012277 Mg2+ binding site [ion binding]; other site 994484012278 G-X-G motif; other site 994484012279 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484012280 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 994484012281 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 994484012282 TrkA-N domain; Region: TrkA_N; pfam02254 994484012283 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012284 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484012285 conserved cys residue [active] 994484012286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012287 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 994484012288 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 994484012289 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484012290 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484012291 active site 994484012292 catalytic tetrad [active] 994484012293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012295 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 994484012296 putative effector binding pocket; other site 994484012297 putative dimerization interface [polypeptide binding]; other site 994484012298 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 994484012299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012300 NmrA-like family; Region: NmrA; pfam05368 994484012301 NAD(P) binding site [chemical binding]; other site 994484012302 active site 994484012303 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 994484012304 homotrimer interaction site [polypeptide binding]; other site 994484012305 putative active site [active] 994484012306 L-lactate permease; Region: Lactate_perm; cl00701 994484012307 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 994484012308 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484012309 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 994484012310 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484012311 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484012312 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 994484012313 Metal-binding active site; metal-binding site 994484012314 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 994484012315 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 994484012316 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 994484012317 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 994484012318 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484012319 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484012320 DNA binding site [nucleotide binding] 994484012321 domain linker motif; other site 994484012322 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484012323 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 994484012324 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 994484012325 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 994484012326 DctM-like transporters; Region: DctM; pfam06808 994484012327 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 994484012328 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 994484012329 Strictosidine synthase; Region: Str_synth; pfam03088 994484012330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484012331 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484012332 dimer interface [polypeptide binding]; other site 994484012333 phosphorylation site [posttranslational modification] 994484012334 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 994484012335 ATP binding site [chemical binding]; other site 994484012336 Mg2+ binding site [ion binding]; other site 994484012337 G-X-G motif; other site 994484012338 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484012339 EamA-like transporter family; Region: EamA; pfam00892 994484012340 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 994484012341 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 994484012342 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 994484012343 Isochorismatase family; Region: Isochorismatase; pfam00857 994484012344 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 994484012345 catalytic triad [active] 994484012346 conserved cis-peptide bond; other site 994484012347 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 994484012348 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 994484012349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484012350 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484012351 Coenzyme A binding pocket [chemical binding]; other site 994484012352 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 994484012353 sulfur relay protein TusC; Validated; Region: PRK00211 994484012354 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 994484012355 DsrC like protein; Region: DsrC; pfam04358 994484012356 hypothetical protein; Validated; Region: PRK09071 994484012357 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 994484012358 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 994484012359 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 994484012360 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 994484012361 putative dimer interface [polypeptide binding]; other site 994484012362 N-terminal domain interface [polypeptide binding]; other site 994484012363 putative substrate binding pocket (H-site) [chemical binding]; other site 994484012364 siroheme synthase; Provisional; Region: cysG; PRK10637 994484012365 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 994484012366 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 994484012367 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 994484012368 active site 994484012369 SAM binding site [chemical binding]; other site 994484012370 homodimer interface [polypeptide binding]; other site 994484012371 seryl-tRNA synthetase; Provisional; Region: PRK05431 994484012372 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 994484012373 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 994484012374 dimer interface [polypeptide binding]; other site 994484012375 active site 994484012376 motif 1; other site 994484012377 motif 2; other site 994484012378 motif 3; other site 994484012379 camphor resistance protein CrcB; Provisional; Region: PRK14234 994484012380 recombination factor protein RarA; Reviewed; Region: PRK13342 994484012381 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484012382 Walker A motif; other site 994484012383 ATP binding site [chemical binding]; other site 994484012384 Walker B motif; other site 994484012385 arginine finger; other site 994484012386 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 994484012387 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 994484012388 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 994484012389 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 994484012390 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 994484012391 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 994484012392 thioredoxin reductase; Provisional; Region: PRK10262 994484012393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484012394 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 994484012395 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 994484012396 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 994484012397 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 994484012398 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 994484012399 rRNA binding site [nucleotide binding]; other site 994484012400 predicted 30S ribosome binding site; other site 994484012401 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 994484012402 Clp amino terminal domain; Region: Clp_N; pfam02861 994484012403 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484012404 Walker A motif; other site 994484012405 ATP binding site [chemical binding]; other site 994484012406 Walker B motif; other site 994484012407 arginine finger; other site 994484012408 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484012409 Walker A motif; other site 994484012410 ATP binding site [chemical binding]; other site 994484012411 Walker B motif; other site 994484012412 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 994484012413 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 994484012414 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484012415 DNA-binding site [nucleotide binding]; DNA binding site 994484012416 RNA-binding motif; other site 994484012417 isocitrate dehydrogenase; Validated; Region: PRK07362 994484012418 isocitrate dehydrogenase; Reviewed; Region: PRK07006 994484012419 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 994484012420 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 994484012421 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 994484012422 nudix motif; other site 994484012423 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 994484012424 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 994484012425 putative lysogenization regulator; Reviewed; Region: PRK00218 994484012426 adenylosuccinate lyase; Provisional; Region: PRK09285 994484012427 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 994484012428 tetramer interface [polypeptide binding]; other site 994484012429 active site 994484012430 Uncharacterized conserved protein [Function unknown]; Region: COG2850 994484012431 Cupin domain; Region: Cupin_2; cl17218 994484012432 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484012433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484012434 Coenzyme A binding pocket [chemical binding]; other site 994484012435 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484012436 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 994484012437 isocitrate lyase; Provisional; Region: PRK15063 994484012438 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 994484012439 tetramer interface [polypeptide binding]; other site 994484012440 active site 994484012441 Mg2+/Mn2+ binding site [ion binding]; other site 994484012442 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484012443 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484012444 dimerization interface [polypeptide binding]; other site 994484012445 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484012446 dimer interface [polypeptide binding]; other site 994484012447 putative CheW interface [polypeptide binding]; other site 994484012448 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 994484012449 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 994484012450 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 994484012451 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 994484012452 NADH dehydrogenase subunit D; Validated; Region: PRK06075 994484012453 NADH dehydrogenase subunit E; Validated; Region: PRK07539 994484012454 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 994484012455 putative dimer interface [polypeptide binding]; other site 994484012456 [2Fe-2S] cluster binding site [ion binding]; other site 994484012457 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 994484012458 SLBB domain; Region: SLBB; pfam10531 994484012459 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 994484012460 NADH dehydrogenase subunit G; Validated; Region: PRK08166 994484012461 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 994484012462 catalytic loop [active] 994484012463 iron binding site [ion binding]; other site 994484012464 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 994484012465 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 994484012466 [4Fe-4S] binding site [ion binding]; other site 994484012467 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 994484012468 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 994484012469 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 994484012470 4Fe-4S binding domain; Region: Fer4; pfam00037 994484012471 4Fe-4S binding domain; Region: Fer4; pfam00037 994484012472 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 994484012473 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 994484012474 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 994484012475 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 994484012476 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 994484012477 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 994484012478 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 994484012479 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 994484012480 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 994484012481 Putative amidotransferase; Region: DUF4066; pfam13278 994484012482 conserved cys residue [active] 994484012483 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 994484012484 Predicted dehydrogenase [General function prediction only]; Region: COG0579 994484012485 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484012486 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 994484012487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012488 LysR family transcriptional regulator; Provisional; Region: PRK14997 994484012489 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 994484012490 putative effector binding pocket; other site 994484012491 dimerization interface [polypeptide binding]; other site 994484012492 Isochorismatase family; Region: Isochorismatase; pfam00857 994484012493 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 994484012494 catalytic triad [active] 994484012495 dimer interface [polypeptide binding]; other site 994484012496 conserved cis-peptide bond; other site 994484012497 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 994484012498 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 994484012499 active site 994484012500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 994484012501 Predicted membrane protein [Function unknown]; Region: COG2259 994484012502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484012503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012504 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 994484012505 putative substrate binding pocket [chemical binding]; other site 994484012506 putative dimerization interface [polypeptide binding]; other site 994484012507 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484012508 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484012509 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484012510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484012511 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484012512 DNA binding site [nucleotide binding] 994484012513 Predicted ATPase [General function prediction only]; Region: COG3903 994484012514 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484012515 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484012516 DNA binding site [nucleotide binding] 994484012517 Predicted ATPase [General function prediction only]; Region: COG3903 994484012518 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484012519 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012520 conserved cys residue [active] 994484012521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012522 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012523 Pirin-related protein [General function prediction only]; Region: COG1741 994484012524 Pirin; Region: Pirin; pfam02678 994484012525 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012526 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484012527 conserved cys residue [active] 994484012528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012529 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484012530 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 994484012531 NAD(P) binding site [chemical binding]; other site 994484012532 catalytic residues [active] 994484012533 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 994484012534 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 994484012535 inhibitor site; inhibition site 994484012536 active site 994484012537 dimer interface [polypeptide binding]; other site 994484012538 catalytic residue [active] 994484012539 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484012540 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484012541 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 994484012542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012543 DNA-binding site [nucleotide binding]; DNA binding site 994484012544 FCD domain; Region: FCD; pfam07729 994484012545 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012546 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484012547 conserved cys residue [active] 994484012548 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 994484012549 Proline racemase; Region: Pro_racemase; pfam05544 994484012550 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 994484012551 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012552 dimer interface [polypeptide binding]; other site 994484012553 conserved gate region; other site 994484012554 ABC-ATPase subunit interface; other site 994484012555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012556 dimer interface [polypeptide binding]; other site 994484012557 conserved gate region; other site 994484012558 putative PBP binding loops; other site 994484012559 ABC-ATPase subunit interface; other site 994484012560 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 994484012561 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 994484012562 Walker A/P-loop; other site 994484012563 ATP binding site [chemical binding]; other site 994484012564 Q-loop/lid; other site 994484012565 ABC transporter signature motif; other site 994484012566 Walker B; other site 994484012567 D-loop; other site 994484012568 H-loop/switch region; other site 994484012569 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484012570 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484012571 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484012572 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 994484012573 DNA-binding site [nucleotide binding]; DNA binding site 994484012574 FCD domain; Region: FCD; pfam07729 994484012575 Cache domain; Region: Cache_1; pfam02743 994484012576 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484012577 dimerization interface [polypeptide binding]; other site 994484012578 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484012579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484012580 dimer interface [polypeptide binding]; other site 994484012581 putative CheW interface [polypeptide binding]; other site 994484012582 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484012583 EamA-like transporter family; Region: EamA; pfam00892 994484012584 Predicted transcriptional regulator [Transcription]; Region: COG3905 994484012585 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 994484012586 potential frameshift: common BLAST hit: gi|70730909|ref|YP_260650.1| malate/L-lactate dehydrogenase family protein 994484012587 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 994484012588 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 994484012589 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484012590 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484012591 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 994484012592 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 994484012593 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 994484012594 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 994484012595 Ligand binding site [chemical binding]; other site 994484012596 Electron transfer flavoprotein domain; Region: ETF; pfam01012 994484012597 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 994484012598 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 994484012599 putative active site [active] 994484012600 putative FMN binding site [chemical binding]; other site 994484012601 putative substrate binding site [chemical binding]; other site 994484012602 putative catalytic residue [active] 994484012603 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484012604 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 994484012605 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 994484012606 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 994484012607 substrate binding site [chemical binding]; other site 994484012608 catalytic Zn binding site [ion binding]; other site 994484012609 NAD binding site [chemical binding]; other site 994484012610 structural Zn binding site [ion binding]; other site 994484012611 dimer interface [polypeptide binding]; other site 994484012612 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 994484012613 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484012614 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 994484012615 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 994484012616 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484012617 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484012619 dimer interface [polypeptide binding]; other site 994484012620 conserved gate region; other site 994484012621 putative PBP binding loops; other site 994484012622 ABC-ATPase subunit interface; other site 994484012623 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 994484012624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484012625 Walker A/P-loop; other site 994484012626 ATP binding site [chemical binding]; other site 994484012627 Q-loop/lid; other site 994484012628 ABC transporter signature motif; other site 994484012629 Walker B; other site 994484012630 D-loop; other site 994484012631 H-loop/switch region; other site 994484012632 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 994484012633 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 994484012634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012635 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 994484012636 dimerization interface [polypeptide binding]; other site 994484012637 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484012638 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 994484012639 [2Fe-2S] cluster binding site [ion binding]; other site 994484012640 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 994484012641 putative alpha subunit interface [polypeptide binding]; other site 994484012642 putative active site [active] 994484012643 putative substrate binding site [chemical binding]; other site 994484012644 Fe binding site [ion binding]; other site 994484012645 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484012646 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 994484012647 FAD binding pocket [chemical binding]; other site 994484012648 FAD binding motif [chemical binding]; other site 994484012649 phosphate binding motif [ion binding]; other site 994484012650 beta-alpha-beta structure motif; other site 994484012651 NAD binding pocket [chemical binding]; other site 994484012652 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 994484012653 catalytic loop [active] 994484012654 iron binding site [ion binding]; other site 994484012655 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484012656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484012657 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484012658 dimerization interface [polypeptide binding]; other site 994484012659 substrate binding pocket [chemical binding]; other site 994484012660 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 994484012661 CoenzymeA binding site [chemical binding]; other site 994484012662 subunit interaction site [polypeptide binding]; other site 994484012663 PHB binding site; other site 994484012664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484012665 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484012666 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 994484012667 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 994484012668 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 994484012669 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 994484012670 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 994484012671 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484012672 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484012673 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 994484012674 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484012675 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 994484012676 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484012677 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484012678 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 994484012679 active site 994484012680 metal binding site [ion binding]; metal-binding site 994484012681 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484012682 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484012683 NAD(P) binding site [chemical binding]; other site 994484012684 catalytic residues [active] 994484012685 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 994484012686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484012687 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 994484012688 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 994484012689 Protein export membrane protein; Region: SecD_SecF; cl14618 994484012690 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 994484012691 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484012692 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484012693 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 994484012694 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484012695 dimerization interface [polypeptide binding]; other site 994484012696 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484012697 dimer interface [polypeptide binding]; other site 994484012698 phosphorylation site [posttranslational modification] 994484012699 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 994484012700 ATP binding site [chemical binding]; other site 994484012701 Mg2+ binding site [ion binding]; other site 994484012702 G-X-G motif; other site 994484012703 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 994484012704 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 994484012705 active site 994484012706 phosphorylation site [posttranslational modification] 994484012707 intermolecular recognition site; other site 994484012708 dimerization interface [polypeptide binding]; other site 994484012709 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484012710 DNA binding site [nucleotide binding] 994484012711 HAMP domain; Region: HAMP; pfam00672 994484012712 dimerization interface [polypeptide binding]; other site 994484012713 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484012714 dimer interface [polypeptide binding]; other site 994484012715 phosphorylation site [posttranslational modification] 994484012716 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 994484012717 ATP binding site [chemical binding]; other site 994484012718 Mg2+ binding site [ion binding]; other site 994484012719 G-X-G motif; other site 994484012720 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484012721 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 994484012722 active site 994484012723 phosphorylation site [posttranslational modification] 994484012724 intermolecular recognition site; other site 994484012725 dimerization interface [polypeptide binding]; other site 994484012726 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484012727 DNA binding site [nucleotide binding] 994484012728 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 994484012729 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484012730 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484012731 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484012732 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484012733 Surface antigen; Region: Bac_surface_Ag; pfam01103 994484012734 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484012735 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 994484012736 active site 994484012737 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 994484012738 NADH(P)-binding; Region: NAD_binding_10; pfam13460 994484012739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012740 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 994484012741 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484012742 putative homodimer interface [polypeptide binding]; other site 994484012743 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484012744 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484012745 Probable Catalytic site; other site 994484012746 metal-binding site 994484012747 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 994484012748 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 994484012749 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 994484012750 Walker A/P-loop; other site 994484012751 ATP binding site [chemical binding]; other site 994484012752 Q-loop/lid; other site 994484012753 ABC transporter signature motif; other site 994484012754 Walker B; other site 994484012755 D-loop; other site 994484012756 H-loop/switch region; other site 994484012757 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 994484012758 putative carbohydrate binding site [chemical binding]; other site 994484012759 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 994484012760 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 994484012761 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 994484012762 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 994484012763 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 994484012764 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484012765 putative homodimer interface [polypeptide binding]; other site 994484012766 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484012767 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 994484012768 Probable Catalytic site; other site 994484012769 metal-binding site 994484012770 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 994484012771 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 994484012772 Ligand binding site; other site 994484012773 Putative Catalytic site; other site 994484012774 DXD motif; other site 994484012775 Methyltransferase domain; Region: Methyltransf_11; pfam08241 994484012776 Predicted membrane protein [Function unknown]; Region: COG2246 994484012777 GtrA-like protein; Region: GtrA; pfam04138 994484012778 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484012779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484012780 active site 994484012781 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 994484012782 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484012783 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 994484012784 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 994484012785 active site 994484012786 homodimer interface [polypeptide binding]; other site 994484012787 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 994484012788 putative homodimer interface [polypeptide binding]; other site 994484012789 DKNYY family; Region: DKNYY; pfam13644 994484012790 DKNYY family; Region: DKNYY; pfam13644 994484012791 DKNYY family; Region: DKNYY; pfam13644 994484012792 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 994484012793 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484012794 putative NAD(P) binding site [chemical binding]; other site 994484012795 catalytic Zn binding site [ion binding]; other site 994484012796 structural Zn binding site [ion binding]; other site 994484012797 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 994484012798 Predicted permease; Region: DUF318; cl17795 994484012799 Predicted permease; Region: DUF318; cl17795 994484012800 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 994484012801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484012802 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 994484012803 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 994484012804 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484012805 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 994484012806 dimerization interface [polypeptide binding]; other site 994484012807 putative DNA binding site [nucleotide binding]; other site 994484012808 putative Zn2+ binding site [ion binding]; other site 994484012809 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 994484012810 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 994484012811 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 994484012812 putative DNA binding site [nucleotide binding]; other site 994484012813 putative Zn2+ binding site [ion binding]; other site 994484012814 dimerization interface [polypeptide binding]; other site 994484012815 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 994484012816 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484012817 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 994484012818 conserved cys residue [active] 994484012819 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484012820 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484012821 Walker A motif; other site 994484012822 ATP binding site [chemical binding]; other site 994484012823 Walker B motif; other site 994484012824 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 994484012825 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 994484012826 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 994484012827 multimer interface [polypeptide binding]; other site 994484012828 active site 994484012829 catalytic triad [active] 994484012830 dimer interface [polypeptide binding]; other site 994484012831 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 994484012832 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 994484012833 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 994484012834 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 994484012835 Walker A/P-loop; other site 994484012836 ATP binding site [chemical binding]; other site 994484012837 Q-loop/lid; other site 994484012838 ABC transporter signature motif; other site 994484012839 Walker B; other site 994484012840 D-loop; other site 994484012841 H-loop/switch region; other site 994484012842 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 994484012843 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 994484012844 Walker A/P-loop; other site 994484012845 ATP binding site [chemical binding]; other site 994484012846 Q-loop/lid; other site 994484012847 ABC transporter signature motif; other site 994484012848 Walker B; other site 994484012849 D-loop; other site 994484012850 H-loop/switch region; other site 994484012851 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 994484012852 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 994484012853 TM-ABC transporter signature motif; other site 994484012854 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484012855 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 994484012856 TM-ABC transporter signature motif; other site 994484012857 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 994484012858 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 994484012859 putative ligand binding site [chemical binding]; other site 994484012860 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 994484012861 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 994484012862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484012863 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484012864 dimer interface [polypeptide binding]; other site 994484012865 phosphorylation site [posttranslational modification] 994484012866 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 994484012867 ATP binding site [chemical binding]; other site 994484012868 Mg2+ binding site [ion binding]; other site 994484012869 G-X-G motif; other site 994484012870 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 994484012871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484012872 active site 994484012873 phosphorylation site [posttranslational modification] 994484012874 intermolecular recognition site; other site 994484012875 dimerization interface [polypeptide binding]; other site 994484012876 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484012877 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 994484012878 active site 994484012879 phosphorylation site [posttranslational modification] 994484012880 intermolecular recognition site; other site 994484012881 dimerization interface [polypeptide binding]; other site 994484012882 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484012883 DNA binding residues [nucleotide binding] 994484012884 dimerization interface [polypeptide binding]; other site 994484012885 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 994484012886 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 994484012887 DNA binding residues [nucleotide binding] 994484012888 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 994484012889 IHF dimer interface [polypeptide binding]; other site 994484012890 IHF - DNA interface [nucleotide binding]; other site 994484012891 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 994484012892 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 994484012893 putative tRNA-binding site [nucleotide binding]; other site 994484012894 B3/4 domain; Region: B3_4; pfam03483 994484012895 tRNA synthetase B5 domain; Region: B5; smart00874 994484012896 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 994484012897 dimer interface [polypeptide binding]; other site 994484012898 motif 1; other site 994484012899 motif 3; other site 994484012900 motif 2; other site 994484012901 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 994484012902 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 994484012903 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 994484012904 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 994484012905 dimer interface [polypeptide binding]; other site 994484012906 motif 1; other site 994484012907 active site 994484012908 motif 2; other site 994484012909 motif 3; other site 994484012910 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 994484012911 23S rRNA binding site [nucleotide binding]; other site 994484012912 L21 binding site [polypeptide binding]; other site 994484012913 L13 binding site [polypeptide binding]; other site 994484012914 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 994484012915 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 994484012916 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 994484012917 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 994484012918 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 994484012919 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 994484012920 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 994484012921 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 994484012922 active site 994484012923 dimer interface [polypeptide binding]; other site 994484012924 motif 1; other site 994484012925 motif 2; other site 994484012926 motif 3; other site 994484012927 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 994484012928 anticodon binding site; other site 994484012929 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484012930 DNA-binding site [nucleotide binding]; DNA binding site 994484012931 RNA-binding motif; other site 994484012932 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 994484012933 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 994484012934 active site 994484012935 tetramer interface [polypeptide binding]; other site 994484012936 D-ribose pyranase; Provisional; Region: PRK11797 994484012937 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 994484012938 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 994484012939 substrate binding site [chemical binding]; other site 994484012940 dimer interface [polypeptide binding]; other site 994484012941 ATP binding site [chemical binding]; other site 994484012942 Transcriptional regulators [Transcription]; Region: PurR; COG1609 994484012943 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 994484012944 DNA binding site [nucleotide binding] 994484012945 domain linker motif; other site 994484012946 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 994484012947 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484012948 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 994484012949 TM-ABC transporter signature motif; other site 994484012950 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 994484012951 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 994484012952 Walker A/P-loop; other site 994484012953 ATP binding site [chemical binding]; other site 994484012954 Q-loop/lid; other site 994484012955 ABC transporter signature motif; other site 994484012956 Walker B; other site 994484012957 D-loop; other site 994484012958 H-loop/switch region; other site 994484012959 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 994484012960 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 994484012961 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 994484012962 ligand binding site [chemical binding]; other site 994484012963 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 994484012964 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 994484012965 DNA-specific endonuclease I; Provisional; Region: PRK15137 994484012966 carbon storage regulator; Provisional; Region: PRK01712 994484012967 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 994484012968 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 994484012969 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 994484012970 active site 994484012971 HIGH motif; other site 994484012972 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 994484012973 KMSKS motif; other site 994484012974 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 994484012975 tRNA binding surface [nucleotide binding]; other site 994484012976 anticodon binding site; other site 994484012977 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 994484012978 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484012979 active site 994484012980 HIGH motif; other site 994484012981 nucleotide binding site [chemical binding]; other site 994484012982 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 994484012983 KMSKS motif; other site 994484012984 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 994484012985 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 994484012986 substrate binding site [chemical binding]; other site 994484012987 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 994484012988 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 994484012989 putative active site [active] 994484012990 putative metal binding site [ion binding]; other site 994484012991 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484012992 MarR family; Region: MarR_2; cl17246 994484012993 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484012994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 994484012995 Family of unknown function (DUF490); Region: DUF490; pfam04357 994484012996 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 994484012997 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 994484012998 Surface antigen; Region: Bac_surface_Ag; pfam01103 994484012999 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 994484013000 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 994484013001 putative catalytic site [active] 994484013002 putative phosphate binding site [ion binding]; other site 994484013003 active site 994484013004 metal binding site A [ion binding]; metal-binding site 994484013005 DNA binding site [nucleotide binding] 994484013006 putative AP binding site [nucleotide binding]; other site 994484013007 putative metal binding site B [ion binding]; other site 994484013008 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 994484013009 Putative catalytic domain of Synechocystis sp. Sll1306 protein and other bacterial homologs; Region: CE4_Sll1306_like; cd10978 994484013010 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 994484013011 putative active site [active] 994484013012 putative catalytic site [active] 994484013013 transcriptional regulator; Provisional; Region: PRK10632 994484013014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484013015 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 994484013016 putative effector binding pocket; other site 994484013017 dimerization interface [polypeptide binding]; other site 994484013018 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 994484013019 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484013020 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484013021 ligand binding site [chemical binding]; other site 994484013022 glutamate carboxypeptidase; Reviewed; Region: PRK06133 994484013023 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 994484013024 metal binding site [ion binding]; metal-binding site 994484013025 dimer interface [polypeptide binding]; other site 994484013026 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 994484013027 MASE2 domain; Region: MASE2; pfam05230 994484013028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484013029 metal binding site [ion binding]; metal-binding site 994484013030 active site 994484013031 I-site; other site 994484013032 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484013033 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 994484013034 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 994484013035 FAD binding domain; Region: FAD_binding_4; pfam01565 994484013036 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 994484013037 FAD binding domain; Region: FAD_binding_4; pfam01565 994484013038 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 994484013039 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 994484013040 Cysteine-rich domain; Region: CCG; pfam02754 994484013041 Cysteine-rich domain; Region: CCG; pfam02754 994484013042 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 994484013043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 994484013044 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 994484013045 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 994484013046 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484013047 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 994484013048 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 994484013049 Walker A/P-loop; other site 994484013050 ATP binding site [chemical binding]; other site 994484013051 Q-loop/lid; other site 994484013052 ABC transporter signature motif; other site 994484013053 Walker B; other site 994484013054 D-loop; other site 994484013055 H-loop/switch region; other site 994484013056 Sulfatase; Region: Sulfatase; cl17466 994484013057 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 994484013058 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 994484013059 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484013060 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 994484013061 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484013062 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 994484013063 putative NAD(P) binding site [chemical binding]; other site 994484013064 active site 994484013065 putative substrate binding site [chemical binding]; other site 994484013066 Bacterial sugar transferase; Region: Bac_transf; pfam02397 994484013067 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 994484013068 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 994484013069 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 994484013070 SLBB domain; Region: SLBB; pfam10531 994484013071 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 994484013072 Chain length determinant protein; Region: Wzz; cl15801 994484013073 Chain length determinant protein; Region: Wzz; cl15801 994484013074 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 994484013075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484013076 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 994484013077 O-Antigen ligase; Region: Wzy_C; pfam04932 994484013078 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 994484013079 active site 994484013080 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 994484013081 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484013082 DXD motif; other site 994484013083 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 994484013084 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 994484013085 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 994484013086 putative active site [active] 994484013087 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 994484013088 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 994484013089 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 994484013090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 994484013091 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 994484013092 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484013093 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484013094 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 994484013095 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 994484013096 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 994484013097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484013098 dimer interface [polypeptide binding]; other site 994484013099 conserved gate region; other site 994484013100 putative PBP binding loops; other site 994484013101 ABC-ATPase subunit interface; other site 994484013102 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 994484013103 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484013104 putative PBP binding loops; other site 994484013105 dimer interface [polypeptide binding]; other site 994484013106 ABC-ATPase subunit interface; other site 994484013107 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 994484013108 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 994484013109 Walker A/P-loop; other site 994484013110 ATP binding site [chemical binding]; other site 994484013111 Q-loop/lid; other site 994484013112 ABC transporter signature motif; other site 994484013113 Walker B; other site 994484013114 D-loop; other site 994484013115 H-loop/switch region; other site 994484013116 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 994484013117 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 994484013118 Walker A/P-loop; other site 994484013119 ATP binding site [chemical binding]; other site 994484013120 Q-loop/lid; other site 994484013121 ABC transporter signature motif; other site 994484013122 Walker B; other site 994484013123 D-loop; other site 994484013124 H-loop/switch region; other site 994484013125 TOBE domain; Region: TOBE_2; pfam08402 994484013126 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484013127 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484013128 Walker A motif; other site 994484013129 ATP binding site [chemical binding]; other site 994484013130 Walker B motif; other site 994484013131 arginine finger; other site 994484013132 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484013133 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 994484013134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484013135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484013136 putative substrate translocation pore; other site 994484013137 AzlC protein; Region: AzlC; cl00570 994484013138 hypothetical protein; Provisional; Region: PRK10621 994484013139 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484013140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484013141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484013142 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 994484013143 putative effector binding pocket; other site 994484013144 dimerization interface [polypeptide binding]; other site 994484013145 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 994484013146 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...; Region: APH; cd05150 994484013147 Phosphotransferase enzyme family; Region: APH; pfam01636 994484013148 active site 994484013149 antibiotic binding site [chemical binding]; other site 994484013150 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 994484013151 protein binding site [polypeptide binding]; other site 994484013152 Predicted membrane protein [Function unknown]; Region: COG4125 994484013153 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 994484013154 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 994484013155 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484013156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484013157 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484013158 dimerization interface [polypeptide binding]; other site 994484013159 substrate binding pocket [chemical binding]; other site 994484013160 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484013161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484013162 Coenzyme A binding pocket [chemical binding]; other site 994484013163 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484013164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 994484013165 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 994484013166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 994484013167 Transposase; Region: HTH_Tnp_1; pfam01527 994484013168 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 994484013169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 994484013170 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 994484013171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 994484013172 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 994484013173 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 994484013174 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 994484013175 Pirin-related protein [General function prediction only]; Region: COG1741 994484013176 Pirin; Region: Pirin; pfam02678 994484013177 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 994484013178 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 994484013179 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 994484013180 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484013181 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484013182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484013183 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 994484013184 dimerization interface [polypeptide binding]; other site 994484013185 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484013186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013187 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 994484013188 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 994484013189 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 994484013190 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 994484013191 Phage-related protein, tail component [Function unknown]; Region: COG4733 994484013192 Putative phage tail protein; Region: Phage-tail_3; pfam13550 994484013193 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 994484013194 Phage-related protein, tail component [Function unknown]; Region: COG4723 994484013195 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 994484013196 MPN+ (JAMM) motif; other site 994484013197 Zinc-binding site [ion binding]; other site 994484013198 NlpC/P60 family; Region: NLPC_P60; cl17555 994484013199 Phage minor tail protein L; Region: Phage_tail_L; cl01908 994484013200 Phage minor tail protein; Region: Phage_min_tail; pfam05939 994484013201 Phage-related minor tail protein [Function unknown]; Region: COG5281 994484013202 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 994484013203 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 994484013204 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 994484013205 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 994484013206 Phage tail protein; Region: Phage_tail_3; pfam08813 994484013207 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 994484013208 LEM-like domain of lamina-associated polypeptide 2 (LAP2) and similar proteins; Region: LEM_like; cd12935 994484013209 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 994484013210 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 994484013211 Terminase-like family; Region: Terminase_6; pfam03237 994484013212 large terminase protein; Provisional; Region: 17; PHA02533 994484013213 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 994484013214 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 994484013215 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 994484013216 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 994484013217 Helix-turn-helix domain; Region: HTH_36; pfam13730 994484013218 Prophage antirepressor [Transcription]; Region: COG3617 994484013219 BRO family, N-terminal domain; Region: Bro-N; pfam02498 994484013220 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 994484013221 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 994484013222 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 994484013223 non-specific DNA binding site [nucleotide binding]; other site 994484013224 salt bridge; other site 994484013225 sequence-specific DNA binding site [nucleotide binding]; other site 994484013226 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 994484013227 Catalytic site [active] 994484013228 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 994484013229 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 994484013230 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 994484013231 RecT family; Region: RecT; pfam03837 994484013232 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 994484013233 APOBEC-like N-terminal domain; Region: APOBEC_N; pfam08210 994484013234 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 994484013235 active site 994484013236 DNA binding site [nucleotide binding] 994484013237 Int/Topo IB signature motif; other site 994484013238 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484013239 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484013240 oxidoreductase; Validated; Region: PRK05717 994484013241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484013242 NAD(P) binding site [chemical binding]; other site 994484013243 active site 994484013244 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 994484013245 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 994484013246 homodimer interface [polypeptide binding]; other site 994484013247 substrate-cofactor binding pocket; other site 994484013248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013249 catalytic residue [active] 994484013250 amidophosphoribosyltransferase; Provisional; Region: PRK09246 994484013251 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 994484013252 active site 994484013253 tetramer interface [polypeptide binding]; other site 994484013254 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484013255 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 994484013256 active site 994484013257 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 994484013258 Colicin V production protein; Region: Colicin_V; cl00567 994484013259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 994484013260 Sporulation related domain; Region: SPOR; pfam05036 994484013261 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 994484013262 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484013263 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 994484013264 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 994484013265 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 994484013266 active site 994484013267 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 994484013268 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 994484013269 dimerization interface 3.5A [polypeptide binding]; other site 994484013270 active site 994484013271 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 994484013272 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 994484013273 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 994484013274 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 994484013275 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 994484013276 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 994484013277 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 994484013278 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 994484013279 tartrate dehydrogenase; Region: TTC; TIGR02089 994484013280 Methyltransferase domain; Region: Methyltransf_31; pfam13847 994484013281 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 994484013282 S-adenosylmethionine binding site [chemical binding]; other site 994484013283 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 994484013284 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 994484013285 substrate binding site [chemical binding]; other site 994484013286 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 994484013287 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 994484013288 substrate binding site [chemical binding]; other site 994484013289 ligand binding site [chemical binding]; other site 994484013290 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484013291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484013292 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 994484013293 dimerization interface [polypeptide binding]; other site 994484013294 PAS fold; Region: PAS_3; pfam08447 994484013295 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484013296 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 994484013297 putative active site [active] 994484013298 heme pocket [chemical binding]; other site 994484013299 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 994484013300 PAS domain S-box; Region: sensory_box; TIGR00229 994484013301 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 994484013302 putative active site [active] 994484013303 heme pocket [chemical binding]; other site 994484013304 PAS domain S-box; Region: sensory_box; TIGR00229 994484013305 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 994484013306 putative active site [active] 994484013307 heme pocket [chemical binding]; other site 994484013308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484013309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484013310 metal binding site [ion binding]; metal-binding site 994484013311 active site 994484013312 I-site; other site 994484013313 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 994484013314 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 994484013315 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 994484013316 putative dimer interface [polypeptide binding]; other site 994484013317 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 994484013318 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 994484013319 FMN binding site [chemical binding]; other site 994484013320 active site 994484013321 catalytic residues [active] 994484013322 substrate binding site [chemical binding]; other site 994484013323 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 994484013324 active site 994484013325 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484013326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484013327 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484013328 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484013329 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 994484013330 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 994484013331 active site 994484013332 HIGH motif; other site 994484013333 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 994484013334 active site 994484013335 KMSKS motif; other site 994484013336 excinuclease ABC subunit B; Provisional; Region: PRK05298 994484013337 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 994484013338 ATP binding site [chemical binding]; other site 994484013339 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 994484013340 nucleotide binding region [chemical binding]; other site 994484013341 ATP-binding site [chemical binding]; other site 994484013342 Ultra-violet resistance protein B; Region: UvrB; pfam12344 994484013343 UvrB/uvrC motif; Region: UVR; pfam02151 994484013344 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 994484013345 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 994484013346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013347 homodimer interface [polypeptide binding]; other site 994484013348 catalytic residue [active] 994484013349 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484013350 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 994484013351 dimer interface [polypeptide binding]; other site 994484013352 active site 994484013353 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484013354 folate binding site [chemical binding]; other site 994484013355 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 994484013356 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484013357 catalytic residue [active] 994484013358 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 994484013359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484013360 DNA-binding site [nucleotide binding]; DNA binding site 994484013361 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 994484013362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013363 homodimer interface [polypeptide binding]; other site 994484013364 catalytic residue [active] 994484013365 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 994484013366 Domain of unknown function DUF20; Region: UPF0118; pfam01594 994484013367 putative protease; Provisional; Region: PRK15452 994484013368 Peptidase family U32; Region: Peptidase_U32; pfam01136 994484013369 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 994484013370 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484013371 dimerization interface [polypeptide binding]; other site 994484013372 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484013373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484013374 dimer interface [polypeptide binding]; other site 994484013375 putative CheW interface [polypeptide binding]; other site 994484013376 Predicted permease [General function prediction only]; Region: COG2056 994484013377 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 994484013378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484013379 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 994484013380 ATP binding site [chemical binding]; other site 994484013381 G-X-G motif; other site 994484013382 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484013383 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 994484013384 active site 994484013385 phosphorylation site [posttranslational modification] 994484013386 intermolecular recognition site; other site 994484013387 dimerization interface [polypeptide binding]; other site 994484013388 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484013389 DNA binding site [nucleotide binding] 994484013390 Predicted membrane protein [Function unknown]; Region: COG3212 994484013391 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484013392 Predicted membrane protein [Function unknown]; Region: COG3212 994484013393 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484013394 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 994484013395 active site 994484013396 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484013397 cytosine permease; Provisional; Region: codB; PRK11017 994484013398 Na binding site [ion binding]; other site 994484013399 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484013400 cytosine deaminase; Provisional; Region: PRK09230 994484013401 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 994484013402 active site 994484013403 diaminopimelate epimerase; Provisional; Region: PRK13577 994484013404 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 994484013405 Uncharacterized conserved protein [Function unknown]; Region: COG2128 994484013406 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 994484013407 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 994484013408 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484013409 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484013410 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 994484013411 ligand binding site [chemical binding]; other site 994484013412 flexible hinge region; other site 994484013413 Pirin-related protein [General function prediction only]; Region: COG1741 994484013414 Pirin; Region: Pirin; pfam02678 994484013415 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 994484013416 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484013417 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 994484013418 active site 994484013419 phosphorylation site [posttranslational modification] 994484013420 intermolecular recognition site; other site 994484013421 dimerization interface [polypeptide binding]; other site 994484013422 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484013423 DNA binding residues [nucleotide binding] 994484013424 dimerization interface [polypeptide binding]; other site 994484013425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 994484013426 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484013427 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484013428 substrate binding pocket [chemical binding]; other site 994484013429 membrane-bound complex binding site; other site 994484013430 hinge residues; other site 994484013431 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484013432 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484013433 substrate binding pocket [chemical binding]; other site 994484013434 membrane-bound complex binding site; other site 994484013435 hinge residues; other site 994484013436 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484013437 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484013438 dimer interface [polypeptide binding]; other site 994484013439 phosphorylation site [posttranslational modification] 994484013440 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 994484013441 ATP binding site [chemical binding]; other site 994484013442 Mg2+ binding site [ion binding]; other site 994484013443 G-X-G motif; other site 994484013444 Response regulator receiver domain; Region: Response_reg; pfam00072 994484013445 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 994484013446 active site 994484013447 phosphorylation site [posttranslational modification] 994484013448 intermolecular recognition site; other site 994484013449 dimerization interface [polypeptide binding]; other site 994484013450 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 994484013451 putative binding surface; other site 994484013452 active site 994484013453 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 994484013454 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484013455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484013456 RNA polymerase sigma factor; Reviewed; Region: PRK12527 994484013457 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484013458 DNA binding residues [nucleotide binding] 994484013459 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484013460 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484013461 FlxA-like protein; Region: FlxA; pfam14282 994484013462 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484013463 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 994484013464 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 994484013465 Walker A/P-loop; other site 994484013466 ATP binding site [chemical binding]; other site 994484013467 Q-loop/lid; other site 994484013468 ABC transporter signature motif; other site 994484013469 Walker B; other site 994484013470 D-loop; other site 994484013471 H-loop/switch region; other site 994484013472 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484013473 FtsX-like permease family; Region: FtsX; pfam02687 994484013474 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484013475 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 994484013476 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 994484013477 active site 994484013478 dimer interface [polypeptide binding]; other site 994484013479 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 994484013480 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 994484013481 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484013482 catalytic residue [active] 994484013483 Uncharacterized conserved protein [Function unknown]; Region: COG1262 994484013484 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 994484013485 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 994484013486 A9 protein conserved region; Region: Pox_A9; pfam04835 994484013487 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 994484013488 Walker A/P-loop; other site 994484013489 ATP binding site [chemical binding]; other site 994484013490 Q-loop/lid; other site 994484013491 ABC transporter signature motif; other site 994484013492 Walker B; other site 994484013493 D-loop; other site 994484013494 H-loop/switch region; other site 994484013495 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 994484013496 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484013497 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013498 acyl-activating enzyme (AAE) consensus motif; other site 994484013499 AMP binding site [chemical binding]; other site 994484013500 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013501 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484013502 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 994484013503 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 994484013504 N-terminal plug; other site 994484013505 ligand-binding site [chemical binding]; other site 994484013506 Condensation domain; Region: Condensation; pfam00668 994484013507 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013508 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 994484013509 acyl-activating enzyme (AAE) consensus motif; other site 994484013510 AMP binding site [chemical binding]; other site 994484013511 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013512 Condensation domain; Region: Condensation; pfam00668 994484013513 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013514 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484013515 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013516 acyl-activating enzyme (AAE) consensus motif; other site 994484013517 AMP binding site [chemical binding]; other site 994484013518 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013519 Condensation domain; Region: Condensation; pfam00668 994484013520 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013521 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484013522 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013523 acyl-activating enzyme (AAE) consensus motif; other site 994484013524 AMP binding site [chemical binding]; other site 994484013525 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013526 Condensation domain; Region: Condensation; pfam00668 994484013527 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013528 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484013529 Condensation domain; Region: Condensation; pfam00668 994484013530 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 994484013531 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484013532 acyl-activating enzyme (AAE) consensus motif; other site 994484013533 AMP binding site [chemical binding]; other site 994484013534 active site 994484013535 CoA binding site [chemical binding]; other site 994484013536 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013537 Condensation domain; Region: Condensation; pfam00668 994484013538 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013539 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484013540 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 994484013541 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013542 AMP binding site [chemical binding]; other site 994484013543 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013544 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013545 AMP binding site [chemical binding]; other site 994484013546 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013547 Condensation domain; Region: Condensation; pfam00668 994484013548 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013549 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484013550 Condensation domain; Region: Condensation; pfam00668 994484013551 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013552 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 994484013553 acyl-activating enzyme (AAE) consensus motif; other site 994484013554 AMP binding site [chemical binding]; other site 994484013555 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 994484013556 Condensation domain; Region: Condensation; pfam00668 994484013557 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013558 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 994484013559 Condensation domain; Region: Condensation; pfam00668 994484013560 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013561 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484013562 acyl-activating enzyme (AAE) consensus motif; other site 994484013563 CoA binding site [chemical binding]; other site 994484013564 Condensation domain; Region: Condensation; pfam00668 994484013565 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 994484013566 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 994484013567 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484013568 acyl-activating enzyme (AAE) consensus motif; other site 994484013569 CoA binding site [chemical binding]; other site 994484013570 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 994484013571 Serine hydrolase; Region: Ser_hydrolase; cl17834 994484013572 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 994484013573 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 994484013574 S-adenosylmethionine binding site [chemical binding]; other site 994484013575 SCP-2 sterol transfer family; Region: SCP2; pfam02036 994484013576 Cupin-like domain; Region: Cupin_8; pfam13621 994484013577 glucose-1-dehydrogenase; Provisional; Region: PRK08936 994484013578 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 994484013579 NAD binding site [chemical binding]; other site 994484013580 homodimer interface [polypeptide binding]; other site 994484013581 active site 994484013582 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 994484013583 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 994484013584 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484013585 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484013586 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484013587 conserved cys residue [active] 994484013588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013590 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 994484013591 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 994484013592 conserved cys residue [active] 994484013593 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 994484013594 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 994484013595 classical (c) SDRs; Region: SDR_c; cd05233 994484013596 NAD(P) binding site [chemical binding]; other site 994484013597 active site 994484013598 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484013599 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484013600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013602 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 994484013603 putative hydrophobic ligand binding site [chemical binding]; other site 994484013604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 994484013605 threonine and homoserine efflux system; Provisional; Region: PRK10532 994484013606 EamA-like transporter family; Region: EamA; pfam00892 994484013607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484013608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484013609 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 994484013610 putative NAD(P) binding site [chemical binding]; other site 994484013611 active site 994484013612 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 994484013613 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 994484013614 putative catalytic residue [active] 994484013615 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 994484013616 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 994484013617 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 994484013618 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 994484013619 active site 994484013620 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 994484013621 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 994484013622 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484013623 catalytic residue [active] 994484013624 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484013625 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 994484013626 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 994484013627 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 994484013628 DNA binding residues [nucleotide binding] 994484013629 dimer interface [polypeptide binding]; other site 994484013630 [2Fe-2S] cluster binding site [ion binding]; other site 994484013631 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 994484013632 putative dimer interface [polypeptide binding]; other site 994484013633 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484013634 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484013635 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 994484013636 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484013637 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 994484013638 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484013639 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 994484013640 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 994484013641 metal binding site [ion binding]; metal-binding site 994484013642 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 994484013643 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 994484013644 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 994484013645 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 994484013646 ABC-ATPase subunit interface; other site 994484013647 dimer interface [polypeptide binding]; other site 994484013648 putative PBP binding regions; other site 994484013649 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 994484013650 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 994484013651 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 994484013652 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 994484013653 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 994484013654 substrate binding site [chemical binding]; other site 994484013655 ligand binding site [chemical binding]; other site 994484013656 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 994484013657 substrate binding site [chemical binding]; other site 994484013658 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 994484013659 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 994484013660 dimer interface [polypeptide binding]; other site 994484013661 active site 994484013662 citrylCoA binding site [chemical binding]; other site 994484013663 oxalacetate/citrate binding site [chemical binding]; other site 994484013664 coenzyme A binding site [chemical binding]; other site 994484013665 catalytic triad [active] 994484013666 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 994484013667 tetramer interface [polypeptide binding]; other site 994484013668 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 994484013669 active site 994484013670 Mg2+/Mn2+ binding site [ion binding]; other site 994484013671 Transcriptional regulators [Transcription]; Region: GntR; COG1802 994484013672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484013673 DNA-binding site [nucleotide binding]; DNA binding site 994484013674 FCD domain; Region: FCD; pfam07729 994484013675 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 994484013676 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 994484013677 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 994484013678 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 994484013679 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 994484013680 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 994484013681 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 994484013682 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 994484013683 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484013684 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 994484013685 Active Sites [active] 994484013686 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 994484013687 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 994484013688 Na binding site [ion binding]; other site 994484013689 putative substrate binding site [chemical binding]; other site 994484013690 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 994484013691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484013692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484013693 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 994484013694 putative effector binding pocket; other site 994484013695 dimerization interface [polypeptide binding]; other site 994484013696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484013697 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484013698 NAD(P) binding site [chemical binding]; other site 994484013699 active site 994484013700 hydrolase; Region: PLN02811 994484013701 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 994484013702 motif II; other site 994484013703 PAS fold; Region: PAS_4; pfam08448 994484013704 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 994484013705 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 994484013706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484013707 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484013708 dimer interface [polypeptide binding]; other site 994484013709 phosphorylation site [posttranslational modification] 994484013710 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 994484013711 ATP binding site [chemical binding]; other site 994484013712 Mg2+ binding site [ion binding]; other site 994484013713 G-X-G motif; other site 994484013714 Response regulator receiver domain; Region: Response_reg; pfam00072 994484013715 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 994484013716 active site 994484013717 phosphorylation site [posttranslational modification] 994484013718 intermolecular recognition site; other site 994484013719 dimerization interface [polypeptide binding]; other site 994484013720 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 994484013721 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484013722 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484013723 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484013724 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 994484013725 putative DNA binding site [nucleotide binding]; other site 994484013726 putative Zn2+ binding site [ion binding]; other site 994484013727 AsnC family; Region: AsnC_trans_reg; pfam01037 994484013728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 994484013729 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 994484013730 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 994484013731 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484013732 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 994484013733 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 994484013734 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 994484013735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484013736 Coenzyme A binding pocket [chemical binding]; other site 994484013737 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 994484013738 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 994484013739 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 994484013740 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 994484013741 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 994484013742 active site 994484013743 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 994484013744 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 994484013745 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 994484013746 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 994484013747 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484013748 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 994484013749 putative ligand binding site [chemical binding]; other site 994484013750 NAD binding site [chemical binding]; other site 994484013751 catalytic site [active] 994484013752 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 994484013753 classical (c) SDRs; Region: SDR_c; cd05233 994484013754 NAD(P) binding site [chemical binding]; other site 994484013755 active site 994484013756 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 994484013757 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484013758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484013759 D-galactonate transporter; Region: 2A0114; TIGR00893 994484013760 putative substrate translocation pore; other site 994484013761 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484013762 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013763 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 994484013764 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 994484013765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484013766 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484013767 putative substrate translocation pore; other site 994484013768 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 994484013769 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 994484013770 substrate binding site [chemical binding]; other site 994484013771 oxyanion hole (OAH) forming residues; other site 994484013772 trimer interface [polypeptide binding]; other site 994484013773 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 994484013774 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484013775 putative acyl-acceptor binding pocket; other site 994484013776 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 994484013777 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 994484013778 oligomer interface [polypeptide binding]; other site 994484013779 metal binding site [ion binding]; metal-binding site 994484013780 metal binding site [ion binding]; metal-binding site 994484013781 putative Cl binding site [ion binding]; other site 994484013782 basic sphincter; other site 994484013783 hydrophobic gate; other site 994484013784 periplasmic entrance; other site 994484013785 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 994484013786 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 994484013787 catalytic triad [active] 994484013788 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 994484013789 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 994484013790 substrate binding site [chemical binding]; other site 994484013791 oxyanion hole (OAH) forming residues; other site 994484013792 trimer interface [polypeptide binding]; other site 994484013793 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484013794 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484013795 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 994484013796 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 994484013797 dimer interface [polypeptide binding]; other site 994484013798 active site 994484013799 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484013800 Cytochrome c; Region: Cytochrom_C; pfam00034 994484013801 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 994484013802 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 994484013803 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 994484013804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 994484013805 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 994484013806 Uncharacterized conserved protein [Function unknown]; Region: COG2308 994484013807 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 994484013808 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 994484013809 putative lipid binding site [chemical binding]; other site 994484013810 Flagellin N-methylase; Region: FliB; cl00497 994484013811 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 994484013812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484013813 DNA-binding site [nucleotide binding]; DNA binding site 994484013814 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 994484013815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013816 homodimer interface [polypeptide binding]; other site 994484013817 catalytic residue [active] 994484013818 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484013819 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484013820 ligand binding site [chemical binding]; other site 994484013821 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 994484013822 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484013823 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484013824 substrate binding pocket [chemical binding]; other site 994484013825 membrane-bound complex binding site; other site 994484013826 hinge residues; other site 994484013827 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 994484013828 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 994484013829 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 994484013830 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 994484013831 Ligand binding site [chemical binding]; other site 994484013832 Electron transfer flavoprotein domain; Region: ETF; pfam01012 994484013833 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 994484013834 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484013835 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 994484013836 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484013837 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484013838 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484013840 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 994484013841 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 994484013842 putative NAD(P) binding site [chemical binding]; other site 994484013843 putative substrate binding site [chemical binding]; other site 994484013844 catalytic Zn binding site [ion binding]; other site 994484013845 structural Zn binding site [ion binding]; other site 994484013846 dimer interface [polypeptide binding]; other site 994484013847 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484013848 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 994484013849 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484013850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484013851 D-galactonate transporter; Region: 2A0114; TIGR00893 994484013852 putative substrate translocation pore; other site 994484013853 galactonate dehydratase; Provisional; Region: PRK14017 994484013854 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 994484013855 putative active site pocket [active] 994484013856 putative metal binding site [ion binding]; other site 994484013857 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 994484013858 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 994484013859 active site 994484013860 intersubunit interface [polypeptide binding]; other site 994484013861 catalytic residue [active] 994484013862 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 994484013863 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 994484013864 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484013865 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 994484013866 putative C-terminal domain interface [polypeptide binding]; other site 994484013867 putative GSH binding site (G-site) [chemical binding]; other site 994484013868 putative dimer interface [polypeptide binding]; other site 994484013869 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 994484013870 putative N-terminal domain interface [polypeptide binding]; other site 994484013871 putative dimer interface [polypeptide binding]; other site 994484013872 putative substrate binding pocket (H-site) [chemical binding]; other site 994484013873 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484013874 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484013875 Coenzyme A binding pocket [chemical binding]; other site 994484013876 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 994484013877 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 994484013878 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 994484013879 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 994484013880 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 994484013881 TM-ABC transporter signature motif; other site 994484013882 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 994484013883 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 994484013884 Walker A/P-loop; other site 994484013885 ATP binding site [chemical binding]; other site 994484013886 Q-loop/lid; other site 994484013887 ABC transporter signature motif; other site 994484013888 Walker B; other site 994484013889 D-loop; other site 994484013890 H-loop/switch region; other site 994484013891 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 994484013892 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 994484013893 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 994484013894 ligand binding site [chemical binding]; other site 994484013895 short chain dehydrogenase; Provisional; Region: PRK07063 994484013896 classical (c) SDRs; Region: SDR_c; cd05233 994484013897 NAD(P) binding site [chemical binding]; other site 994484013898 active site 994484013899 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 994484013900 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484013901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484013902 DNA-binding site [nucleotide binding]; DNA binding site 994484013903 FCD domain; Region: FCD; pfam07729 994484013904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 994484013905 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 994484013906 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 994484013907 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 994484013908 FeS/SAM binding site; other site 994484013909 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 994484013910 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484013911 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484013912 WHG domain; Region: WHG; pfam13305 994484013913 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 994484013914 active site 994484013915 PilZ domain; Region: PilZ; cl01260 994484013916 DNA polymerase III subunit delta'; Validated; Region: PRK05707 994484013917 DNA polymerase III subunit delta'; Validated; Region: PRK08485 994484013918 thymidylate kinase; Validated; Region: tmk; PRK00698 994484013919 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 994484013920 TMP-binding site; other site 994484013921 ATP-binding site [chemical binding]; other site 994484013922 YceG-like family; Region: YceG; pfam02618 994484013923 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 994484013924 dimerization interface [polypeptide binding]; other site 994484013925 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 994484013926 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 994484013927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484013928 catalytic residue [active] 994484013929 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 994484013930 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 994484013931 dimer interface [polypeptide binding]; other site 994484013932 active site 994484013933 acyl carrier protein; Provisional; Region: acpP; PRK00982 994484013934 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484013935 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 994484013936 NAD(P) binding site [chemical binding]; other site 994484013937 homotetramer interface [polypeptide binding]; other site 994484013938 homodimer interface [polypeptide binding]; other site 994484013939 active site 994484013940 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 994484013941 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 994484013942 putative phosphate acyltransferase; Provisional; Region: PRK05331 994484013943 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 994484013944 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 994484013945 Maf-like protein; Region: Maf; pfam02545 994484013946 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 994484013947 active site 994484013948 dimer interface [polypeptide binding]; other site 994484013949 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 994484013950 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 994484013951 tandem repeat interface [polypeptide binding]; other site 994484013952 oligomer interface [polypeptide binding]; other site 994484013953 active site residues [active] 994484013954 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484013955 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 994484013956 motif II; other site 994484013957 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 994484013958 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 994484013959 RNA binding surface [nucleotide binding]; other site 994484013960 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 994484013961 active site 994484013962 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 994484013963 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 994484013964 homodimer interface [polypeptide binding]; other site 994484013965 oligonucleotide binding site [chemical binding]; other site 994484013966 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 994484013967 Ligand binding site; other site 994484013968 metal-binding site 994484013969 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 994484013970 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 994484013971 XdhC Rossmann domain; Region: XdhC_C; pfam13478 994484013972 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484013973 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484013974 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 994484013975 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484013976 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484013977 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484013978 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 994484013979 catalytic loop [active] 994484013980 iron binding site [ion binding]; other site 994484013981 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484013982 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 994484013983 FAD binding domain; Region: FAD_binding_4; pfam01565 994484013984 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 994484013985 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 994484013986 Low molecular weight phosphatase family; Region: LMWPc; cd00115 994484013987 active site 994484013988 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 994484013989 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 994484013990 Ligand binding site; other site 994484013991 oligomer interface; other site 994484013992 Uncharacterized conserved protein [Function unknown]; Region: COG2835 994484013993 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 994484013994 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 994484013995 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 994484013996 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 994484013997 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 994484013998 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 994484013999 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 994484014000 Competence protein; Region: Competence; pfam03772 994484014001 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 994484014002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 994484014003 inner membrane transport permease; Provisional; Region: PRK15066 994484014004 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 994484014005 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 994484014006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484014007 Walker A/P-loop; other site 994484014008 ATP binding site [chemical binding]; other site 994484014009 Q-loop/lid; other site 994484014010 ABC transporter signature motif; other site 994484014011 Walker B; other site 994484014012 D-loop; other site 994484014013 H-loop/switch region; other site 994484014014 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484014015 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 994484014016 putative C-terminal domain interface [polypeptide binding]; other site 994484014017 putative GSH binding site (G-site) [chemical binding]; other site 994484014018 putative dimer interface [polypeptide binding]; other site 994484014019 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 994484014020 putative N-terminal domain interface [polypeptide binding]; other site 994484014021 putative dimer interface [polypeptide binding]; other site 994484014022 putative substrate binding pocket (H-site) [chemical binding]; other site 994484014023 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 994484014024 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 994484014025 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 994484014026 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 994484014027 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 994484014028 active site 994484014029 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 994484014030 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484014031 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 994484014032 putative effector binding pocket; other site 994484014033 dimerization interface [polypeptide binding]; other site 994484014034 alanine-tRNA ligase; Region: PLN02961 994484014035 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 994484014036 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 994484014037 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 994484014038 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 994484014039 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 994484014040 binding surface 994484014041 TPR motif; other site 994484014042 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 994484014043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484014044 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484014045 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484014046 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 994484014047 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 994484014048 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 994484014049 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 994484014050 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 994484014051 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 994484014052 ATP binding site [chemical binding]; other site 994484014053 Walker A motif; other site 994484014054 hexamer interface [polypeptide binding]; other site 994484014055 Walker B motif; other site 994484014056 Response regulator receiver domain; Region: Response_reg; pfam00072 994484014057 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484014058 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 994484014059 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 994484014060 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 994484014061 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 994484014062 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 994484014063 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 994484014064 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 994484014065 Walker A motif; other site 994484014066 ATP binding site [chemical binding]; other site 994484014067 Walker B motif; other site 994484014068 arginine finger; other site 994484014069 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 994484014070 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 994484014071 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 994484014072 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484014073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014074 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484014075 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 994484014076 putative DNA binding site [nucleotide binding]; other site 994484014077 putative Zn2+ binding site [ion binding]; other site 994484014078 AsnC family; Region: AsnC_trans_reg; pfam01037 994484014079 Predicted membrane protein [Function unknown]; Region: COG2364 994484014080 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 994484014081 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 994484014082 FeS/SAM binding site; other site 994484014083 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 994484014084 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 994484014085 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 994484014086 catalytic residue [active] 994484014087 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 994484014088 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 994484014089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014090 homodimer interface [polypeptide binding]; other site 994484014091 catalytic residue [active] 994484014092 LysE type translocator; Region: LysE; cl00565 994484014093 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484014094 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484014095 dimerization interface [polypeptide binding]; other site 994484014096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484014097 dimer interface [polypeptide binding]; other site 994484014098 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484014099 putative CheW interface [polypeptide binding]; other site 994484014100 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 994484014101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484014102 DNA-binding site [nucleotide binding]; DNA binding site 994484014103 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 994484014104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014105 homodimer interface [polypeptide binding]; other site 994484014106 catalytic residue [active] 994484014107 short chain dehydrogenase; Provisional; Region: PRK06172 994484014108 classical (c) SDRs; Region: SDR_c; cd05233 994484014109 NAD(P) binding site [chemical binding]; other site 994484014110 active site 994484014111 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 994484014112 Prostaglandin dehydrogenases; Region: PGDH; cd05288 994484014113 NAD(P) binding site [chemical binding]; other site 994484014114 substrate binding site [chemical binding]; other site 994484014115 dimer interface [polypeptide binding]; other site 994484014116 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 994484014117 active site 994484014118 dimer interface [polypeptide binding]; other site 994484014119 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484014120 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 994484014121 active site 994484014122 phosphorylation site [posttranslational modification] 994484014123 intermolecular recognition site; other site 994484014124 dimerization interface [polypeptide binding]; other site 994484014125 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484014126 DNA binding site [nucleotide binding] 994484014127 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484014128 dimerization interface [polypeptide binding]; other site 994484014129 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484014130 dimer interface [polypeptide binding]; other site 994484014131 phosphorylation site [posttranslational modification] 994484014132 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 994484014133 ATP binding site [chemical binding]; other site 994484014134 Mg2+ binding site [ion binding]; other site 994484014135 G-X-G motif; other site 994484014136 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 994484014137 Ca2+ binding site [ion binding]; other site 994484014138 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 994484014139 Domain of unknown function DUF20; Region: UPF0118; pfam01594 994484014140 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 994484014141 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 994484014142 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 994484014143 CoenzymeA binding site [chemical binding]; other site 994484014144 subunit interaction site [polypeptide binding]; other site 994484014145 PHB binding site; other site 994484014146 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 994484014147 catalytic core [active] 994484014148 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 994484014149 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 994484014150 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 994484014151 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 994484014152 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 994484014153 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 994484014154 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 994484014155 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484014156 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484014157 dimerization interface [polypeptide binding]; other site 994484014158 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484014159 dimer interface [polypeptide binding]; other site 994484014160 phosphorylation site [posttranslational modification] 994484014161 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 994484014162 ATP binding site [chemical binding]; other site 994484014163 Mg2+ binding site [ion binding]; other site 994484014164 G-X-G motif; other site 994484014165 Response regulator receiver domain; Region: Response_reg; pfam00072 994484014166 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 994484014167 active site 994484014168 phosphorylation site [posttranslational modification] 994484014169 intermolecular recognition site; other site 994484014170 dimerization interface [polypeptide binding]; other site 994484014171 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 994484014172 active site 1 [active] 994484014173 dimer interface [polypeptide binding]; other site 994484014174 active site 2 [active] 994484014175 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 994484014176 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 994484014177 dimer interface [polypeptide binding]; other site 994484014178 active site 994484014179 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 994484014180 Amidohydrolase; Region: Amidohydro_2; pfam04909 994484014181 Pirin; Region: Pirin; pfam02678 994484014182 Pirin-related protein [General function prediction only]; Region: COG1741 994484014183 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 994484014184 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 994484014185 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484014186 heat shock protein 90; Provisional; Region: PRK05218 994484014187 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 994484014188 ATP binding site [chemical binding]; other site 994484014189 Mg2+ binding site [ion binding]; other site 994484014190 G-X-G motif; other site 994484014191 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484014192 EamA-like transporter family; Region: EamA; pfam00892 994484014193 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 994484014194 CoenzymeA binding site [chemical binding]; other site 994484014195 subunit interaction site [polypeptide binding]; other site 994484014196 PHB binding site; other site 994484014197 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 994484014198 CoenzymeA binding site [chemical binding]; other site 994484014199 subunit interaction site [polypeptide binding]; other site 994484014200 PHB binding site; other site 994484014201 Predicted membrane protein [Function unknown]; Region: COG3821 994484014202 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 994484014203 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 994484014204 CoA binding domain; Region: CoA_binding; pfam02629 994484014205 CoA-ligase; Region: Ligase_CoA; pfam00549 994484014206 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 994484014207 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 994484014208 CoA-ligase; Region: Ligase_CoA; pfam00549 994484014209 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 994484014210 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 994484014211 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484014212 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484014213 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 994484014214 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 994484014215 E3 interaction surface; other site 994484014216 lipoyl attachment site [posttranslational modification]; other site 994484014217 e3 binding domain; Region: E3_binding; pfam02817 994484014218 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 994484014219 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 994484014220 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 994484014221 TPP-binding site [chemical binding]; other site 994484014222 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 994484014223 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 994484014224 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 994484014225 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 994484014226 L-aspartate oxidase; Provisional; Region: PRK06175 994484014227 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 994484014228 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 994484014229 SdhC subunit interface [polypeptide binding]; other site 994484014230 proximal heme binding site [chemical binding]; other site 994484014231 cardiolipin binding site; other site 994484014232 Iron-sulfur protein interface; other site 994484014233 proximal quinone binding site [chemical binding]; other site 994484014234 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 994484014235 Iron-sulfur protein interface; other site 994484014236 proximal quinone binding site [chemical binding]; other site 994484014237 SdhD (CybS) interface [polypeptide binding]; other site 994484014238 proximal heme binding site [chemical binding]; other site 994484014239 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 994484014240 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 994484014241 dimer interface [polypeptide binding]; other site 994484014242 active site 994484014243 citrylCoA binding site [chemical binding]; other site 994484014244 NADH binding [chemical binding]; other site 994484014245 cationic pore residues; other site 994484014246 oxalacetate/citrate binding site [chemical binding]; other site 994484014247 coenzyme A binding site [chemical binding]; other site 994484014248 catalytic triad [active] 994484014249 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 994484014250 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 994484014251 Na binding site [ion binding]; other site 994484014252 Predicted membrane protein [Function unknown]; Region: COG3162 994484014253 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484014254 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 994484014255 VacJ like lipoprotein; Region: VacJ; cl01073 994484014256 Protein of unknown function (DUF808); Region: DUF808; pfam05661 994484014257 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 994484014258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484014259 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 994484014260 Transposase IS200 like; Region: Y1_Tnp; pfam01797 994484014261 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 994484014262 glyoxylate carboligase; Provisional; Region: PRK11269 994484014263 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484014264 PYR/PP interface [polypeptide binding]; other site 994484014265 dimer interface [polypeptide binding]; other site 994484014266 TPP binding site [chemical binding]; other site 994484014267 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484014268 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 994484014269 TPP-binding site [chemical binding]; other site 994484014270 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 994484014271 tartronate semialdehyde reductase; Provisional; Region: PRK15059 994484014272 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 994484014273 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 994484014274 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 994484014275 MOFRL family; Region: MOFRL; pfam05161 994484014276 pyruvate kinase; Provisional; Region: PRK06247 994484014277 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 994484014278 domain interfaces; other site 994484014279 active site 994484014280 Urea transporter; Region: UT; pfam03253 994484014281 Ion transport protein; Region: Ion_trans; pfam00520 994484014282 Ion channel; Region: Ion_trans_2; pfam07885 994484014283 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 994484014284 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 994484014285 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 994484014286 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484014287 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484014288 putative substrate translocation pore; other site 994484014289 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 994484014290 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 994484014291 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 994484014292 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 994484014293 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 994484014294 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 994484014295 acyl-activating enzyme (AAE) consensus motif; other site 994484014296 putative AMP binding site [chemical binding]; other site 994484014297 putative active site [active] 994484014298 putative CoA binding site [chemical binding]; other site 994484014299 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 994484014300 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 994484014301 Cupin domain; Region: Cupin_2; cl17218 994484014302 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484014303 putative substrate translocation pore; other site 994484014304 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 994484014305 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 994484014306 Tetramer interface [polypeptide binding]; other site 994484014307 active site 994484014308 FMN-binding site [chemical binding]; other site 994484014309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484014310 HemK family putative methylases; Region: hemK_fam; TIGR00536 994484014311 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 994484014312 S-adenosylmethionine binding site [chemical binding]; other site 994484014313 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 994484014314 Isochorismatase family; Region: Isochorismatase; pfam00857 994484014315 catalytic triad [active] 994484014316 conserved cis-peptide bond; other site 994484014317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 994484014318 Smr domain; Region: Smr; pfam01713 994484014319 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 994484014320 homodecamer interface [polypeptide binding]; other site 994484014321 GTP cyclohydrolase I; Provisional; Region: PLN03044 994484014322 active site 994484014323 putative catalytic site residues [active] 994484014324 zinc binding site [ion binding]; other site 994484014325 GTP-CH-I/GFRP interaction surface; other site 994484014326 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484014327 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 994484014328 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 994484014329 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 994484014330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014331 homodimer interface [polypeptide binding]; other site 994484014332 catalytic residue [active] 994484014333 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484014334 MarR family; Region: MarR_2; pfam12802 994484014335 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 994484014336 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484014337 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 994484014338 active site 994484014339 homotetramer interface [polypeptide binding]; other site 994484014340 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 994484014341 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 994484014342 active site 994484014343 catalytic site [active] 994484014344 tetramer interface [polypeptide binding]; other site 994484014345 OHCU decarboxylase; Region: UHCUDC; TIGR03164 994484014346 allantoicase; Provisional; Region: PRK13257 994484014347 Allantoicase repeat; Region: Allantoicase; pfam03561 994484014348 Allantoicase repeat; Region: Allantoicase; pfam03561 994484014349 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 994484014350 ureidoglycolate hydrolase; Provisional; Region: PRK03606 994484014351 Predicted membrane protein [Function unknown]; Region: COG3748 994484014352 Protein of unknown function (DUF989); Region: DUF989; pfam06181 994484014353 Cytochrome c; Region: Cytochrom_C; pfam00034 994484014354 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 994484014355 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 994484014356 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 994484014357 active site 994484014358 nucleophile elbow; other site 994484014359 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 994484014360 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 994484014361 putative acyl-acceptor binding pocket; other site 994484014362 septum formation inhibitor; Reviewed; Region: minC; PRK00339 994484014363 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 994484014364 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 994484014365 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 994484014366 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 994484014367 Switch I; other site 994484014368 Switch II; other site 994484014369 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 994484014370 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 994484014371 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 994484014372 active site 994484014373 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 994484014374 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 994484014375 active site 994484014376 metal binding site [ion binding]; metal-binding site 994484014377 transcriptional regulator protein; Region: phnR; TIGR03337 994484014378 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484014379 DNA-binding site [nucleotide binding]; DNA binding site 994484014380 UTRA domain; Region: UTRA; pfam07702 994484014381 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484014382 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 994484014383 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 994484014384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484014385 dimer interface [polypeptide binding]; other site 994484014386 conserved gate region; other site 994484014387 putative PBP binding loops; other site 994484014388 ABC-ATPase subunit interface; other site 994484014389 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484014390 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484014391 dimer interface [polypeptide binding]; other site 994484014392 conserved gate region; other site 994484014393 ABC-ATPase subunit interface; other site 994484014394 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484014395 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484014396 Walker A/P-loop; other site 994484014397 ATP binding site [chemical binding]; other site 994484014398 Q-loop/lid; other site 994484014399 ABC transporter signature motif; other site 994484014400 Walker B; other site 994484014401 D-loop; other site 994484014402 H-loop/switch region; other site 994484014403 TOBE domain; Region: TOBE_2; pfam08402 994484014404 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 994484014405 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 994484014406 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 994484014407 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 994484014408 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 994484014409 putative carbohydrate binding site [chemical binding]; other site 994484014410 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 994484014411 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 994484014412 NAD(P) binding site [chemical binding]; other site 994484014413 carboxy-terminal protease; Provisional; Region: PRK11186 994484014414 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 994484014415 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 994484014416 protein binding site [polypeptide binding]; other site 994484014417 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 994484014418 Catalytic dyad [active] 994484014419 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 994484014420 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 994484014421 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 and...; Region: CBS_pair_GGDEF_assoc; cd04598 994484014422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484014423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484014424 metal binding site [ion binding]; metal-binding site 994484014425 active site 994484014426 I-site; other site 994484014427 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484014428 RHS Repeat; Region: RHS_repeat; pfam05593 994484014429 RHS Repeat; Region: RHS_repeat; pfam05593 994484014430 RHS Repeat; Region: RHS_repeat; cl11982 994484014431 RHS Repeat; Region: RHS_repeat; pfam05593 994484014432 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 994484014433 RHS Repeat; Region: RHS_repeat; pfam05593 994484014434 RHS Repeat; Region: RHS_repeat; cl11982 994484014435 RHS Repeat; Region: RHS_repeat; pfam05593 994484014436 RHS Repeat; Region: RHS_repeat; pfam05593 994484014437 RHS protein; Region: RHS; pfam03527 994484014438 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484014439 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 994484014440 non-specific DNA binding site [nucleotide binding]; other site 994484014441 salt bridge; other site 994484014442 sequence-specific DNA binding site [nucleotide binding]; other site 994484014443 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 994484014444 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 994484014445 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 994484014446 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484014447 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 994484014448 putative heme binding pocket [chemical binding]; other site 994484014449 potential frameshift: common BLAST hit: gi|70731752|ref|YP_261494.1| recombination associated protein 994484014450 Putative exonuclease, RdgC; Region: RdgC; cl01122 994484014451 Putative exonuclease, RdgC; Region: RdgC; cl01122 994484014452 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 994484014453 Sodium Bile acid symporter family; Region: SBF; pfam01758 994484014454 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 994484014455 potential frameshift: common BLAST hit: gi|77457892|ref|YP_347397.1| phospholipid/glycerol acyltransferase 994484014456 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484014457 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484014458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484014459 putative acyl-acceptor binding pocket; other site 994484014460 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 994484014461 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 994484014462 gating phenylalanine in ion channel; other site 994484014463 Cupin domain; Region: Cupin_2; cl17218 994484014464 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484014465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484014466 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484014467 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484014468 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 994484014469 Na binding site [ion binding]; other site 994484014470 PAS fold; Region: PAS_7; pfam12860 994484014471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484014472 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484014473 dimer interface [polypeptide binding]; other site 994484014474 phosphorylation site [posttranslational modification] 994484014475 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 994484014476 ATP binding site [chemical binding]; other site 994484014477 Mg2+ binding site [ion binding]; other site 994484014478 G-X-G motif; other site 994484014479 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484014480 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 994484014481 active site 994484014482 phosphorylation site [posttranslational modification] 994484014483 intermolecular recognition site; other site 994484014484 dimerization interface [polypeptide binding]; other site 994484014485 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 994484014486 RmuC family; Region: RmuC; pfam02646 994484014487 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 994484014488 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 994484014489 catalytic residues [active] 994484014490 dimer interface [polypeptide binding]; other site 994484014491 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 994484014492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484014493 putative substrate translocation pore; other site 994484014494 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 994484014495 MarR family; Region: MarR; pfam01047 994484014496 cobalamin synthase; Reviewed; Region: cobS; PRK00235 994484014497 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 994484014498 catalytic core [active] 994484014499 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 994484014500 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 994484014501 putative dimer interface [polypeptide binding]; other site 994484014502 active site pocket [active] 994484014503 putative cataytic base [active] 994484014504 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 994484014505 homotrimer interface [polypeptide binding]; other site 994484014506 Walker A motif; other site 994484014507 GTP binding site [chemical binding]; other site 994484014508 Walker B motif; other site 994484014509 cobyric acid synthase; Provisional; Region: PRK00784 994484014510 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 994484014511 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 994484014512 catalytic triad [active] 994484014513 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 994484014514 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 994484014515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014516 homodimer interface [polypeptide binding]; other site 994484014517 catalytic residue [active] 994484014518 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 994484014519 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 994484014520 FMN binding site [chemical binding]; other site 994484014521 dimer interface [polypeptide binding]; other site 994484014522 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 994484014523 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484014524 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 994484014525 catalytic triad [active] 994484014526 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 994484014527 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 994484014528 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 994484014529 Walker A motif; other site 994484014530 homodimer interface [polypeptide binding]; other site 994484014531 ATP binding site [chemical binding]; other site 994484014532 hydroxycobalamin binding site [chemical binding]; other site 994484014533 Walker B motif; other site 994484014534 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 994484014535 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 994484014536 NlpC/P60 family; Region: NLPC_P60; pfam00877 994484014537 NlpC/P60 family; Region: NLPC_P60; pfam00877 994484014538 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 994484014539 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484014540 Walker A motif; other site 994484014541 ATP binding site [chemical binding]; other site 994484014542 Walker B motif; other site 994484014543 arginine finger; other site 994484014544 Domain of unknown function DUF20; Region: UPF0118; pfam01594 994484014545 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 994484014546 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 994484014547 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 994484014548 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 994484014549 dimerization interface [polypeptide binding]; other site 994484014550 putative ATP binding site [chemical binding]; other site 994484014551 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 994484014552 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 994484014553 active site 994484014554 substrate binding site [chemical binding]; other site 994484014555 cosubstrate binding site; other site 994484014556 catalytic site [active] 994484014557 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 994484014558 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 994484014559 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 994484014560 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 994484014561 homodimer interface [polypeptide binding]; other site 994484014562 metal binding site [ion binding]; metal-binding site 994484014563 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 994484014564 homodimer interface [polypeptide binding]; other site 994484014565 active site 994484014566 putative chemical substrate binding site [chemical binding]; other site 994484014567 metal binding site [ion binding]; metal-binding site 994484014568 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 994484014569 HD domain; Region: HD_4; pfam13328 994484014570 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 994484014571 synthetase active site [active] 994484014572 NTP binding site [chemical binding]; other site 994484014573 metal binding site [ion binding]; metal-binding site 994484014574 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 994484014575 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 994484014576 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 994484014577 TRAM domain; Region: TRAM; pfam01938 994484014578 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 994484014579 S-adenosylmethionine binding site [chemical binding]; other site 994484014580 cysteine synthase B; Region: cysM; TIGR01138 994484014581 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 994484014582 dimer interface [polypeptide binding]; other site 994484014583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014584 catalytic residue [active] 994484014585 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 994484014586 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484014587 dimerization interface [polypeptide binding]; other site 994484014588 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484014589 dimer interface [polypeptide binding]; other site 994484014590 phosphorylation site [posttranslational modification] 994484014591 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 994484014592 ATP binding site [chemical binding]; other site 994484014593 Mg2+ binding site [ion binding]; other site 994484014594 G-X-G motif; other site 994484014595 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 994484014596 active site 994484014597 phosphorylation site [posttranslational modification] 994484014598 intermolecular recognition site; other site 994484014599 dimerization interface [polypeptide binding]; other site 994484014600 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 994484014601 putative binding surface; other site 994484014602 active site 994484014603 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 994484014604 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 994484014605 putative ligand binding site [chemical binding]; other site 994484014606 putative NAD binding site [chemical binding]; other site 994484014607 catalytic site [active] 994484014608 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 994484014609 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 994484014610 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 994484014611 catalytic residues [active] 994484014612 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 994484014613 ArsC family; Region: ArsC; pfam03960 994484014614 catalytic residues [active] 994484014615 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 994484014616 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484014617 Predicted membrane protein [Function unknown]; Region: COG3308 994484014618 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 994484014619 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 994484014620 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 994484014621 Ligand Binding Site [chemical binding]; other site 994484014622 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 994484014623 hypothetical protein; Provisional; Region: PRK04860 994484014624 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 994484014625 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 994484014626 CoA-transferase family III; Region: CoA_transf_3; pfam02515 994484014627 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 994484014628 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484014629 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 994484014630 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484014631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014632 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 994484014633 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 994484014634 ATP binding site [chemical binding]; other site 994484014635 Mg2+ binding site [ion binding]; other site 994484014636 G-X-G motif; other site 994484014637 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 994484014638 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 994484014639 active site 994484014640 phosphorylation site [posttranslational modification] 994484014641 intermolecular recognition site; other site 994484014642 dimerization interface [polypeptide binding]; other site 994484014643 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484014644 DNA binding site [nucleotide binding] 994484014645 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 994484014646 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 994484014647 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484014648 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484014649 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 994484014650 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 994484014651 sensor protein RstB; Provisional; Region: PRK10604 994484014652 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484014653 dimerization interface [polypeptide binding]; other site 994484014654 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484014655 dimer interface [polypeptide binding]; other site 994484014656 phosphorylation site [posttranslational modification] 994484014657 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 994484014658 ATP binding site [chemical binding]; other site 994484014659 Mg2+ binding site [ion binding]; other site 994484014660 G-X-G motif; other site 994484014661 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484014662 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 994484014663 active site 994484014664 phosphorylation site [posttranslational modification] 994484014665 intermolecular recognition site; other site 994484014666 dimerization interface [polypeptide binding]; other site 994484014667 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484014668 DNA binding site [nucleotide binding] 994484014669 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 994484014670 ATP cone domain; Region: ATP-cone; pfam03477 994484014671 ATP cone domain; Region: ATP-cone; pfam03477 994484014672 Class I ribonucleotide reductase; Region: RNR_I; cd01679 994484014673 active site 994484014674 dimer interface [polypeptide binding]; other site 994484014675 catalytic residues [active] 994484014676 effector binding site; other site 994484014677 R2 peptide binding site; other site 994484014678 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 994484014679 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 994484014680 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 994484014681 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 994484014682 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 994484014683 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 994484014684 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 994484014685 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 994484014686 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 994484014687 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 994484014688 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 994484014689 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 994484014690 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 994484014691 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 994484014692 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 994484014693 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 994484014694 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 994484014695 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 994484014696 active site 994484014697 phosphorylation site [posttranslational modification] 994484014698 intermolecular recognition site; other site 994484014699 dimerization interface [polypeptide binding]; other site 994484014700 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 994484014701 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 994484014702 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 994484014703 FlgN protein; Region: FlgN; pfam05130 994484014704 Flagellar regulator YcgR; Region: YcgR; pfam07317 994484014705 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 994484014706 PilZ domain; Region: PilZ; pfam07238 994484014707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484014708 putative substrate translocation pore; other site 994484014709 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484014710 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484014711 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484014712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484014713 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 994484014714 ATP binding site [chemical binding]; other site 994484014715 Mg2+ binding site [ion binding]; other site 994484014716 G-X-G motif; other site 994484014717 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 994484014718 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 994484014719 active site 994484014720 phosphorylation site [posttranslational modification] 994484014721 intermolecular recognition site; other site 994484014722 dimerization interface [polypeptide binding]; other site 994484014723 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 994484014724 binding surface 994484014725 TPR motif; other site 994484014726 TPR repeat; Region: TPR_11; pfam13414 994484014727 Tetratricopeptide repeat; Region: TPR_16; pfam13432 994484014728 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 994484014729 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 994484014730 haemagglutination activity domain; Region: Haemagg_act; pfam05860 994484014731 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 994484014732 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484014733 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484014734 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 994484014735 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 994484014736 RTX toxin acyltransferase family; Region: HlyC; cl01131 994484014737 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 994484014738 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 994484014739 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 994484014740 Arc-like DNA binding domain; Region: Arc; pfam03869 994484014741 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484014742 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484014743 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484014744 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 994484014745 MgtE intracellular N domain; Region: MgtE_N; smart00924 994484014746 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 994484014747 Divalent cation transporter; Region: MgtE; cl00786 994484014748 carbon storage regulator; Provisional; Region: PRK01712 994484014749 aspartate kinase; Reviewed; Region: PRK06635 994484014750 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 994484014751 putative nucleotide binding site [chemical binding]; other site 994484014752 putative catalytic residues [active] 994484014753 putative Mg ion binding site [ion binding]; other site 994484014754 putative aspartate binding site [chemical binding]; other site 994484014755 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 994484014756 putative allosteric regulatory site; other site 994484014757 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 994484014758 putative allosteric regulatory residue; other site 994484014759 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 994484014760 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 994484014761 motif 1; other site 994484014762 active site 994484014763 motif 2; other site 994484014764 motif 3; other site 994484014765 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 994484014766 DHHA1 domain; Region: DHHA1; pfam02272 994484014767 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 994484014768 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 994484014769 tetramer interface [polypeptide binding]; other site 994484014770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014771 catalytic residue [active] 994484014772 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 994484014773 active site 994484014774 homopentamer interface [polypeptide binding]; other site 994484014775 dimer interface [polypeptide binding]; other site 994484014776 succinylglutamate desuccinylase; Provisional; Region: PRK05324 994484014777 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 994484014778 active site 994484014779 Zn binding site [ion binding]; other site 994484014780 succinylarginine dihydrolase; Provisional; Region: PRK13281 994484014781 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 994484014782 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 994484014783 NAD(P) binding site [chemical binding]; other site 994484014784 catalytic residues [active] 994484014785 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484014786 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 994484014787 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 994484014788 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 994484014789 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 994484014790 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 994484014791 inhibitor-cofactor binding pocket; inhibition site 994484014792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484014793 catalytic residue [active] 994484014794 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484014795 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484014796 conserved cys residue [active] 994484014797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014799 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 994484014800 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484014801 Walker A/P-loop; other site 994484014802 ATP binding site [chemical binding]; other site 994484014803 Q-loop/lid; other site 994484014804 ABC transporter signature motif; other site 994484014805 Walker B; other site 994484014806 D-loop; other site 994484014807 H-loop/switch region; other site 994484014808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484014809 dimer interface [polypeptide binding]; other site 994484014810 conserved gate region; other site 994484014811 putative PBP binding loops; other site 994484014812 ABC-ATPase subunit interface; other site 994484014813 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484014814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484014815 dimer interface [polypeptide binding]; other site 994484014816 conserved gate region; other site 994484014817 putative PBP binding loops; other site 994484014818 ABC-ATPase subunit interface; other site 994484014819 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484014820 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484014821 substrate binding pocket [chemical binding]; other site 994484014822 membrane-bound complex binding site; other site 994484014823 hinge residues; other site 994484014824 acetyl-CoA synthetase; Provisional; Region: PRK00174 994484014825 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 994484014826 active site 994484014827 CoA binding site [chemical binding]; other site 994484014828 acyl-activating enzyme (AAE) consensus motif; other site 994484014829 AMP binding site [chemical binding]; other site 994484014830 acetate binding site [chemical binding]; other site 994484014831 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 994484014832 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 994484014833 dimer interface [polypeptide binding]; other site 994484014834 putative radical transfer pathway; other site 994484014835 diiron center [ion binding]; other site 994484014836 tyrosyl radical; other site 994484014837 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484014838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484014839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484014840 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 994484014841 dimerization interface [polypeptide binding]; other site 994484014842 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 994484014843 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 994484014844 Helix-turn-helix domain; Region: HTH_18; pfam12833 994484014845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484014847 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 994484014848 salt bridge; other site 994484014849 non-specific DNA binding site [nucleotide binding]; other site 994484014850 sequence-specific DNA binding site [nucleotide binding]; other site 994484014851 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 994484014852 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 994484014853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484014854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484014855 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 994484014856 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 994484014857 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484014858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484014859 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 994484014860 dimerization interface [polypeptide binding]; other site 994484014861 hypothetical protein; Validated; Region: PRK06186 994484014862 conserved cys residue [active] 994484014863 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 994484014864 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 994484014865 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 994484014866 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 994484014867 active site 994484014868 catalytic site [active] 994484014869 metal binding site [ion binding]; metal-binding site 994484014870 Predicted membrane protein [Function unknown]; Region: COG3212 994484014871 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 994484014872 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 994484014873 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 994484014874 Cl binding site [ion binding]; other site 994484014875 oligomer interface [polypeptide binding]; other site 994484014876 HAMP domain; Region: HAMP; pfam00672 994484014877 dimerization interface [polypeptide binding]; other site 994484014878 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484014879 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484014880 dimer interface [polypeptide binding]; other site 994484014881 putative CheW interface [polypeptide binding]; other site 994484014882 major facilitator superfamily transporter; Provisional; Region: PRK05122 994484014883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484014884 putative substrate translocation pore; other site 994484014885 hypothetical protein; Provisional; Region: PRK09256 994484014886 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 994484014887 aromatic amino acid transporter; Provisional; Region: PRK10238 994484014888 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 994484014889 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 994484014890 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 994484014891 RNA binding surface [nucleotide binding]; other site 994484014892 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 994484014893 probable active site [active] 994484014894 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 994484014895 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 994484014896 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 994484014897 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 994484014898 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 994484014899 active site 994484014900 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 994484014901 intracellular septation protein A; Reviewed; Region: PRK00259 994484014902 YciI-like protein; Reviewed; Region: PRK11370 994484014903 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 994484014904 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484014905 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 994484014906 active site 994484014907 phosphorylation site [posttranslational modification] 994484014908 intermolecular recognition site; other site 994484014909 dimerization interface [polypeptide binding]; other site 994484014910 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484014911 DNA binding site [nucleotide binding] 994484014912 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 994484014913 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484014914 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 994484014915 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 994484014916 ATP binding site [chemical binding]; other site 994484014917 Mg2+ binding site [ion binding]; other site 994484014918 G-X-G motif; other site 994484014919 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 994484014920 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 994484014921 Imelysin; Region: Peptidase_M75; cl09159 994484014922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 994484014923 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484014924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484014925 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484014926 multidrug efflux protein; Reviewed; Region: PRK09579 994484014927 Protein export membrane protein; Region: SecD_SecF; cl14618 994484014928 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 994484014929 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484014930 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 994484014931 S-adenosylmethionine binding site [chemical binding]; other site 994484014932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484014933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484014934 dimer interface [polypeptide binding]; other site 994484014935 phosphorylation site [posttranslational modification] 994484014936 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 994484014937 ATP binding site [chemical binding]; other site 994484014938 Mg2+ binding site [ion binding]; other site 994484014939 G-X-G motif; other site 994484014940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 994484014941 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 994484014942 active site 994484014943 phosphorylation site [posttranslational modification] 994484014944 intermolecular recognition site; other site 994484014945 dimerization interface [polypeptide binding]; other site 994484014946 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484014947 DNA binding site [nucleotide binding] 994484014948 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 994484014949 active site 994484014950 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 994484014951 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 994484014952 ring oligomerisation interface [polypeptide binding]; other site 994484014953 ATP/Mg binding site [chemical binding]; other site 994484014954 stacking interactions; other site 994484014955 hinge regions; other site 994484014956 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 994484014957 oligomerisation interface [polypeptide binding]; other site 994484014958 mobile loop; other site 994484014959 roof hairpin; other site 994484014960 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 994484014961 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 994484014962 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 994484014963 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 994484014964 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 994484014965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484014966 NAD(P) binding site [chemical binding]; other site 994484014967 active site 994484014968 antiporter inner membrane protein; Provisional; Region: PRK11670 994484014969 Domain of unknown function DUF59; Region: DUF59; pfam01883 994484014970 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 994484014971 Walker A motif; other site 994484014972 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 994484014973 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 994484014974 active site 994484014975 HIGH motif; other site 994484014976 KMSKS motif; other site 994484014977 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 994484014978 tRNA binding surface [nucleotide binding]; other site 994484014979 anticodon binding site; other site 994484014980 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 994484014981 dimer interface [polypeptide binding]; other site 994484014982 putative tRNA-binding site [nucleotide binding]; other site 994484014983 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 994484014984 ferredoxin; Provisional; Region: PRK08764 994484014985 Putative Fe-S cluster; Region: FeS; pfam04060 994484014986 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 994484014987 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 994484014988 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 994484014989 endonuclease III; Provisional; Region: PRK10702 994484014990 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 994484014991 minor groove reading motif; other site 994484014992 helix-hairpin-helix signature motif; other site 994484014993 substrate binding pocket [chemical binding]; other site 994484014994 active site 994484014995 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 994484014996 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484014997 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 994484014998 active site 994484014999 phosphorylation site [posttranslational modification] 994484015000 intermolecular recognition site; other site 994484015001 dimerization interface [polypeptide binding]; other site 994484015002 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484015003 DNA binding residues [nucleotide binding] 994484015004 dimerization interface [polypeptide binding]; other site 994484015005 argininosuccinate synthase; Provisional; Region: PRK13820 994484015006 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 994484015007 ANP binding site [chemical binding]; other site 994484015008 Substrate Binding Site II [chemical binding]; other site 994484015009 Substrate Binding Site I [chemical binding]; other site 994484015010 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484015011 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484015012 ligand binding site [chemical binding]; other site 994484015013 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 994484015014 active site 994484015015 substrate binding pocket [chemical binding]; other site 994484015016 dimer interface [polypeptide binding]; other site 994484015017 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 994484015018 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 994484015019 dimer interface [polypeptide binding]; other site 994484015020 catalytic site [active] 994484015021 putative active site [active] 994484015022 putative substrate binding site [chemical binding]; other site 994484015023 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 994484015024 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 994484015025 dimer interface [polypeptide binding]; other site 994484015026 decamer (pentamer of dimers) interface [polypeptide binding]; other site 994484015027 catalytic triad [active] 994484015028 peroxidatic and resolving cysteines [active] 994484015029 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 994484015030 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 994484015031 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 994484015032 heme binding site [chemical binding]; other site 994484015033 ferroxidase pore; other site 994484015034 ferroxidase diiron center [ion binding]; other site 994484015035 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 994484015036 putative GSH binding site [chemical binding]; other site 994484015037 catalytic residues [active] 994484015038 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 994484015039 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 994484015040 putative [Fe4-S4] binding site [ion binding]; other site 994484015041 putative molybdopterin cofactor binding site [chemical binding]; other site 994484015042 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 994484015043 putative molybdopterin cofactor binding site; other site 994484015044 ornithine carbamoyltransferase; Provisional; Region: PRK00779 994484015045 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 994484015046 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 994484015047 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484015048 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 994484015049 Walker A/P-loop; other site 994484015050 ATP binding site [chemical binding]; other site 994484015051 Q-loop/lid; other site 994484015052 ABC transporter signature motif; other site 994484015053 Walker B; other site 994484015054 D-loop; other site 994484015055 H-loop/switch region; other site 994484015056 TOBE domain; Region: TOBE_2; pfam08402 994484015057 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 994484015058 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 994484015059 putative deacylase active site [active] 994484015060 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 994484015061 amphipathic channel; other site 994484015062 Asn-Pro-Ala signature motifs; other site 994484015063 glycerol kinase; Provisional; Region: glpK; PRK00047 994484015064 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 994484015065 N- and C-terminal domain interface [polypeptide binding]; other site 994484015066 active site 994484015067 MgATP binding site [chemical binding]; other site 994484015068 catalytic site [active] 994484015069 metal binding site [ion binding]; metal-binding site 994484015070 glycerol binding site [chemical binding]; other site 994484015071 homotetramer interface [polypeptide binding]; other site 994484015072 homodimer interface [polypeptide binding]; other site 994484015073 protein IIAGlc interface [polypeptide binding]; other site 994484015074 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 994484015075 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 994484015076 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 994484015077 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 994484015078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484015079 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484015080 substrate binding pocket [chemical binding]; other site 994484015081 membrane-bound complex binding site; other site 994484015082 hinge residues; other site 994484015083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015084 dimer interface [polypeptide binding]; other site 994484015085 conserved gate region; other site 994484015086 putative PBP binding loops; other site 994484015087 ABC-ATPase subunit interface; other site 994484015088 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484015089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015090 dimer interface [polypeptide binding]; other site 994484015091 conserved gate region; other site 994484015092 putative PBP binding loops; other site 994484015093 ABC-ATPase subunit interface; other site 994484015094 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484015095 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484015096 Walker A/P-loop; other site 994484015097 ATP binding site [chemical binding]; other site 994484015098 Q-loop/lid; other site 994484015099 ABC transporter signature motif; other site 994484015100 Walker B; other site 994484015101 D-loop; other site 994484015102 H-loop/switch region; other site 994484015103 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484015104 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484015105 dimer interface [polypeptide binding]; other site 994484015106 phosphorylation site [posttranslational modification] 994484015107 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 994484015108 Mg2+ binding site [ion binding]; other site 994484015109 G-X-G motif; other site 994484015110 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484015111 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 994484015112 active site 994484015113 phosphorylation site [posttranslational modification] 994484015114 intermolecular recognition site; other site 994484015115 dimerization interface [polypeptide binding]; other site 994484015116 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484015117 Walker A motif; other site 994484015118 ATP binding site [chemical binding]; other site 994484015119 Walker B motif; other site 994484015120 arginine finger; other site 994484015121 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484015122 GlpM protein; Region: GlpM; pfam06942 994484015123 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 994484015124 NADH(P)-binding; Region: NAD_binding_10; pfam13460 994484015125 NAD binding site [chemical binding]; other site 994484015126 putative active site [active] 994484015127 substrate binding site [chemical binding]; other site 994484015128 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 994484015129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484015130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484015131 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 994484015132 putative effector binding pocket; other site 994484015133 dimerization interface [polypeptide binding]; other site 994484015134 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 994484015135 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 994484015136 putative aromatic amino acid binding site; other site 994484015137 PAS domain; Region: PAS; smart00091 994484015138 putative active site [active] 994484015139 heme pocket [chemical binding]; other site 994484015140 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484015141 Walker A motif; other site 994484015142 ATP binding site [chemical binding]; other site 994484015143 Walker B motif; other site 994484015144 arginine finger; other site 994484015145 glycine cleavage system protein H; Provisional; Region: PRK13380 994484015146 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 994484015147 lipoyl attachment site [posttranslational modification]; other site 994484015148 glycine dehydrogenase; Provisional; Region: PRK05367 994484015149 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 994484015150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015151 tetramer interface [polypeptide binding]; other site 994484015152 catalytic residue [active] 994484015153 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 994484015154 tetramer interface [polypeptide binding]; other site 994484015155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015156 catalytic residue [active] 994484015157 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 994484015158 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 994484015159 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 994484015160 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 994484015161 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484015162 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484015163 DNA-binding site [nucleotide binding]; DNA binding site 994484015164 RNA-binding motif; other site 994484015165 RDD family; Region: RDD; pfam06271 994484015166 quinolinate synthetase; Provisional; Region: PRK09375 994484015167 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 994484015168 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 994484015169 Multicopper oxidase; Region: Cu-oxidase; pfam00394 994484015170 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 994484015171 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 994484015172 CopC domain; Region: CopC; pfam04234 994484015173 Copper resistance protein D; Region: CopD; pfam05425 994484015174 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 994484015175 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484015176 putative substrate translocation pore; other site 994484015177 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 994484015178 Ligand Binding Site [chemical binding]; other site 994484015179 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 994484015180 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 994484015181 FeS/SAM binding site; other site 994484015182 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 994484015183 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 994484015184 binding surface 994484015185 TPR motif; other site 994484015186 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484015187 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484015188 ligand binding site [chemical binding]; other site 994484015189 translocation protein TolB; Provisional; Region: tolB; PRK00178 994484015190 TolB amino-terminal domain; Region: TolB_N; pfam04052 994484015191 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 994484015192 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 994484015193 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 994484015194 TolA protein; Region: tolA_full; TIGR02794 994484015195 TolA protein; Region: tolA_full; TIGR02794 994484015196 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 994484015197 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 994484015198 TolR protein; Region: tolR; TIGR02801 994484015199 TolQ protein; Region: tolQ; TIGR02796 994484015200 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 994484015201 active site 994484015202 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 994484015203 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484015204 Walker A motif; other site 994484015205 ATP binding site [chemical binding]; other site 994484015206 Walker B motif; other site 994484015207 arginine finger; other site 994484015208 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 994484015209 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 994484015210 RuvA N terminal domain; Region: RuvA_N; pfam01330 994484015211 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484015212 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 994484015213 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 994484015214 active site 994484015215 putative DNA-binding cleft [nucleotide binding]; other site 994484015216 dimer interface [polypeptide binding]; other site 994484015217 hypothetical protein; Validated; Region: PRK00110 994484015218 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 994484015219 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 994484015220 dimer interface [polypeptide binding]; other site 994484015221 anticodon binding site; other site 994484015222 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 994484015223 homodimer interface [polypeptide binding]; other site 994484015224 motif 1; other site 994484015225 active site 994484015226 motif 2; other site 994484015227 GAD domain; Region: GAD; pfam02938 994484015228 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 994484015229 active site 994484015230 motif 3; other site 994484015231 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 994484015232 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 994484015233 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 994484015234 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 994484015235 dimerization interface [polypeptide binding]; other site 994484015236 DPS ferroxidase diiron center [ion binding]; other site 994484015237 ion pore; other site 994484015238 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484015239 DNA-binding site [nucleotide binding]; DNA binding site 994484015240 RNA-binding motif; other site 994484015241 hypothetical protein; Provisional; Region: PRK00295 994484015242 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 994484015243 outer membrane porin, OprD family; Region: OprD; pfam03573 994484015244 mechanosensitive channel MscS; Provisional; Region: PRK10334 994484015245 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484015246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 994484015247 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 994484015248 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 994484015249 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 994484015250 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 994484015251 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484015252 dimerization interface [polypeptide binding]; other site 994484015253 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 994484015254 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 994484015255 putative active site [active] 994484015256 heme pocket [chemical binding]; other site 994484015257 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484015258 dimer interface [polypeptide binding]; other site 994484015259 phosphorylation site [posttranslational modification] 994484015260 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 994484015261 ATP binding site [chemical binding]; other site 994484015262 Mg2+ binding site [ion binding]; other site 994484015263 G-X-G motif; other site 994484015264 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 994484015265 hypothetical protein; Provisional; Region: PRK08999 994484015266 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 994484015267 active site 994484015268 8-oxo-dGMP binding site [chemical binding]; other site 994484015269 nudix motif; other site 994484015270 metal binding site [ion binding]; metal-binding site 994484015271 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 994484015272 thiamine phosphate binding site [chemical binding]; other site 994484015273 active site 994484015274 pyrophosphate binding site [ion binding]; other site 994484015275 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) with...; Region: GST_N_1; cd03043 994484015276 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484015277 putative C-terminal domain interface [polypeptide binding]; other site 994484015278 putative GSH binding site (G-site) [chemical binding]; other site 994484015279 putative dimer interface [polypeptide binding]; other site 994484015280 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 994484015281 putative substrate binding pocket (H-site) [chemical binding]; other site 994484015282 putative N-terminal domain interface [polypeptide binding]; other site 994484015283 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 994484015284 heterotetramer interface [polypeptide binding]; other site 994484015285 active site pocket [active] 994484015286 cleavage site 994484015287 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 994484015288 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 994484015289 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 994484015290 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; cl17351 994484015291 nucleotide binding region [chemical binding]; other site 994484015292 ATP-binding site [chemical binding]; other site 994484015293 SEC-C motif; Region: SEC-C; pfam02810 994484015294 Protein of unknown function (DUF721); Region: DUF721; pfam05258 994484015295 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 994484015296 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484015297 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 994484015298 Predicted deacetylase [General function prediction only]; Region: COG3233 994484015299 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 994484015300 putative active site [active] 994484015301 putative Zn binding site [ion binding]; other site 994484015302 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 994484015303 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 994484015304 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484015305 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484015306 putative active site [active] 994484015307 putative substrate binding site [chemical binding]; other site 994484015308 putative cosubstrate binding site; other site 994484015309 catalytic site [active] 994484015310 exonuclease I; Provisional; Region: sbcB; PRK11779 994484015311 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 994484015312 active site 994484015313 catalytic site [active] 994484015314 substrate binding site [chemical binding]; other site 994484015315 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 994484015316 Predicted membrane protein/domain [Function unknown]; Region: COG1714 994484015317 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 994484015318 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 994484015319 MoxR-like ATPases [General function prediction only]; Region: COG0714 994484015320 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484015321 Walker A motif; other site 994484015322 ATP binding site [chemical binding]; other site 994484015323 Walker B motif; other site 994484015324 arginine finger; other site 994484015325 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 994484015326 Protein of unknown function DUF58; Region: DUF58; pfam01882 994484015327 von Willebrand factor type A domain; Region: VWA_2; pfam13519 994484015328 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 994484015329 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 994484015330 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 994484015331 PilZ domain; Region: PilZ; pfam07238 994484015332 pyruvate kinase; Provisional; Region: PRK05826 994484015333 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 994484015334 domain interfaces; other site 994484015335 active site 994484015336 enoyl-CoA hydratase; Provisional; Region: PRK06688 994484015337 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 994484015338 substrate binding site [chemical binding]; other site 994484015339 oxyanion hole (OAH) forming residues; other site 994484015340 trimer interface [polypeptide binding]; other site 994484015341 hypothetical protein; Provisional; Region: PRK05713 994484015342 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 994484015343 catalytic loop [active] 994484015344 iron binding site [ion binding]; other site 994484015345 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 994484015346 FAD binding pocket [chemical binding]; other site 994484015347 FAD binding motif [chemical binding]; other site 994484015348 phosphate binding motif [ion binding]; other site 994484015349 beta-alpha-beta structure motif; other site 994484015350 NAD binding pocket [chemical binding]; other site 994484015351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484015352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484015353 metal binding site [ion binding]; metal-binding site 994484015354 active site 994484015355 I-site; other site 994484015356 putative fumarate hydratase; Provisional; Region: PRK15392 994484015357 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 994484015358 Fumarase C-terminus; Region: Fumerase_C; pfam05683 994484015359 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 994484015360 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 994484015361 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 994484015362 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484015363 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484015364 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 994484015365 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484015366 dimer interface [polypeptide binding]; other site 994484015367 phosphorylation site [posttranslational modification] 994484015368 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 994484015369 ATP binding site [chemical binding]; other site 994484015370 Mg2+ binding site [ion binding]; other site 994484015371 G-X-G motif; other site 994484015372 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484015373 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 994484015374 active site 994484015375 phosphorylation site [posttranslational modification] 994484015376 intermolecular recognition site; other site 994484015377 dimerization interface [polypeptide binding]; other site 994484015378 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484015379 Walker A motif; other site 994484015380 ATP binding site [chemical binding]; other site 994484015381 Walker B motif; other site 994484015382 arginine finger; other site 994484015383 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 994484015384 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 994484015385 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484015386 putative substrate translocation pore; other site 994484015387 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 994484015388 Uncharacterized conserved protein [Function unknown]; Region: COG1359 994484015389 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 994484015390 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 994484015391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484015392 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484015393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484015394 Walker A/P-loop; other site 994484015395 ATP binding site [chemical binding]; other site 994484015396 Q-loop/lid; other site 994484015397 ABC transporter signature motif; other site 994484015398 Walker B; other site 994484015399 D-loop; other site 994484015400 H-loop/switch region; other site 994484015401 TOBE domain; Region: TOBE_2; pfam08402 994484015402 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484015403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015404 dimer interface [polypeptide binding]; other site 994484015405 conserved gate region; other site 994484015406 putative PBP binding loops; other site 994484015407 ABC-ATPase subunit interface; other site 994484015408 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 994484015409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015410 dimer interface [polypeptide binding]; other site 994484015411 ABC-ATPase subunit interface; other site 994484015412 putative PBP binding loops; other site 994484015413 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 994484015414 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484015415 betaine aldehyde dehydrogenase; Region: PLN02467 994484015416 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 994484015417 NAD(P) binding site [chemical binding]; other site 994484015418 catalytic residues [active] 994484015419 catalytic residues [active] 994484015420 hypothetical protein; Provisional; Region: PRK07524 994484015421 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484015422 PYR/PP interface [polypeptide binding]; other site 994484015423 dimer interface [polypeptide binding]; other site 994484015424 TPP binding site [chemical binding]; other site 994484015425 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484015426 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 994484015427 TPP-binding site [chemical binding]; other site 994484015428 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484015429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484015430 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484015431 substrate binding pocket [chemical binding]; other site 994484015432 dimerization interface [polypeptide binding]; other site 994484015433 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 994484015434 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 994484015435 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 994484015436 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 994484015437 THF binding site; other site 994484015438 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 994484015439 substrate binding site [chemical binding]; other site 994484015440 THF binding site; other site 994484015441 zinc-binding site [ion binding]; other site 994484015442 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 994484015443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484015444 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 994484015445 putative dimerization interface [polypeptide binding]; other site 994484015446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 994484015447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484015448 Coenzyme A binding pocket [chemical binding]; other site 994484015449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 994484015450 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484015451 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 994484015452 nudix motif; other site 994484015453 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 994484015454 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 994484015455 active site 994484015456 phosphorylation site [posttranslational modification] 994484015457 intermolecular recognition site; other site 994484015458 dimerization interface [polypeptide binding]; other site 994484015459 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484015460 Response regulator receiver domain; Region: Response_reg; pfam00072 994484015461 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 994484015462 active site 994484015463 phosphorylation site [posttranslational modification] 994484015464 intermolecular recognition site; other site 994484015465 dimerization interface [polypeptide binding]; other site 994484015466 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484015467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484015468 metal binding site [ion binding]; metal-binding site 994484015469 active site 994484015470 I-site; other site 994484015471 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 994484015472 Response regulator receiver domain; Region: Response_reg; pfam00072 994484015473 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 994484015474 active site 994484015475 phosphorylation site [posttranslational modification] 994484015476 intermolecular recognition site; other site 994484015477 dimerization interface [polypeptide binding]; other site 994484015478 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484015479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484015480 metal binding site [ion binding]; metal-binding site 994484015481 active site 994484015482 I-site; other site 994484015483 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 994484015484 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 994484015485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484015486 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 994484015487 ATP binding site [chemical binding]; other site 994484015488 G-X-G motif; other site 994484015489 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 994484015490 active site 994484015491 phosphorylation site [posttranslational modification] 994484015492 intermolecular recognition site; other site 994484015493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484015494 dimerization interface [polypeptide binding]; other site 994484015495 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484015496 dimer interface [polypeptide binding]; other site 994484015497 phosphorylation site [posttranslational modification] 994484015498 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 994484015499 ATP binding site [chemical binding]; other site 994484015500 Mg2+ binding site [ion binding]; other site 994484015501 G-X-G motif; other site 994484015502 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 994484015503 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 994484015504 active site 994484015505 FMN binding site [chemical binding]; other site 994484015506 substrate binding site [chemical binding]; other site 994484015507 3Fe-4S cluster binding site [ion binding]; other site 994484015508 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 994484015509 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 994484015510 Spore germination protein; Region: Spore_permease; cl17796 994484015511 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 994484015512 Transglycosylase; Region: Transgly; pfam00912 994484015513 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 994484015514 putative fimbrial protein TcfA; Provisional; Region: PRK15308 994484015515 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 994484015516 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 994484015517 Predicted transcriptional regulators [Transcription]; Region: COG1695 994484015518 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 994484015519 Transposase; Region: DDE_Tnp_ISL3; pfam01610 994484015520 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 994484015521 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 994484015522 FAD binding pocket [chemical binding]; other site 994484015523 FAD binding motif [chemical binding]; other site 994484015524 phosphate binding motif [ion binding]; other site 994484015525 NAD binding pocket [chemical binding]; other site 994484015526 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 994484015527 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 994484015528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015529 ATP-grasp domain; Region: ATP-grasp; pfam02222 994484015530 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 994484015531 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 994484015532 Trp docking motif [polypeptide binding]; other site 994484015533 putative active site [active] 994484015534 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 994484015535 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 994484015536 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 994484015537 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 994484015538 trimer interface [polypeptide binding]; other site 994484015539 putative metal binding site [ion binding]; other site 994484015540 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 994484015541 putative active site [active] 994484015542 putative CoA binding site [chemical binding]; other site 994484015543 nudix motif; other site 994484015544 metal binding site [ion binding]; metal-binding site 994484015545 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 994484015546 nudix motif; other site 994484015547 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 994484015548 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 994484015549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484015550 DNA-binding site [nucleotide binding]; DNA binding site 994484015551 UTRA domain; Region: UTRA; pfam07702 994484015552 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 994484015553 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 994484015554 active site 994484015555 dimer interface [polypeptide binding]; other site 994484015556 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 994484015557 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 994484015558 dimer interface [polypeptide binding]; other site 994484015559 active site 994484015560 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 994484015561 dimer interface [polypeptide binding]; other site 994484015562 active site 994484015563 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 994484015564 HPr interaction site; other site 994484015565 glycerol kinase (GK) interaction site [polypeptide binding]; other site 994484015566 active site 994484015567 phosphorylation site [posttranslational modification] 994484015568 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 994484015569 dimerization domain swap beta strand [polypeptide binding]; other site 994484015570 regulatory protein interface [polypeptide binding]; other site 994484015571 active site 994484015572 regulatory phosphorylation site [posttranslational modification]; other site 994484015573 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 994484015574 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 994484015575 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 994484015576 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 994484015577 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 994484015578 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 994484015579 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 994484015580 active site turn [active] 994484015581 phosphorylation site [posttranslational modification] 994484015582 Transposase, Mutator family; Region: Transposase_mut; pfam00872 994484015583 MULE transposase domain; Region: MULE; pfam10551 994484015584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 994484015585 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 994484015586 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 994484015587 dimerization interface [polypeptide binding]; other site 994484015588 ATP binding site [chemical binding]; other site 994484015589 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 994484015590 dimerization interface [polypeptide binding]; other site 994484015591 ATP binding site [chemical binding]; other site 994484015592 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 994484015593 putative active site [active] 994484015594 catalytic triad [active] 994484015595 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 994484015596 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484015597 substrate binding pocket [chemical binding]; other site 994484015598 membrane-bound complex binding site; other site 994484015599 hinge residues; other site 994484015600 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484015601 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484015602 catalytic residue [active] 994484015603 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 994484015604 active site 994484015605 hydrophilic channel; other site 994484015606 dimerization interface [polypeptide binding]; other site 994484015607 catalytic residues [active] 994484015608 active site lid [active] 994484015609 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 994484015610 Recombination protein O N terminal; Region: RecO_N; pfam11967 994484015611 Recombination protein O C terminal; Region: RecO_C; pfam02565 994484015612 GTPase Era; Reviewed; Region: era; PRK00089 994484015613 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 994484015614 G1 box; other site 994484015615 GTP/Mg2+ binding site [chemical binding]; other site 994484015616 Switch I region; other site 994484015617 G2 box; other site 994484015618 Switch II region; other site 994484015619 G3 box; other site 994484015620 G4 box; other site 994484015621 G5 box; other site 994484015622 KH domain; Region: KH_2; pfam07650 994484015623 ribonuclease III; Reviewed; Region: rnc; PRK00102 994484015624 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 994484015625 dimerization interface [polypeptide binding]; other site 994484015626 active site 994484015627 metal binding site [ion binding]; metal-binding site 994484015628 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 994484015629 dsRNA binding site [nucleotide binding]; other site 994484015630 signal peptidase I; Provisional; Region: PRK10861 994484015631 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 994484015632 Catalytic site [active] 994484015633 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 994484015634 GTP-binding protein LepA; Provisional; Region: PRK05433 994484015635 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 994484015636 G1 box; other site 994484015637 putative GEF interaction site [polypeptide binding]; other site 994484015638 GTP/Mg2+ binding site [chemical binding]; other site 994484015639 Switch I region; other site 994484015640 G2 box; other site 994484015641 G3 box; other site 994484015642 Switch II region; other site 994484015643 G4 box; other site 994484015644 G5 box; other site 994484015645 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 994484015646 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 994484015647 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 994484015648 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 994484015649 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 994484015650 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 994484015651 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 994484015652 multifunctional aminopeptidase A; Provisional; Region: PRK00913 994484015653 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 994484015654 interface (dimer of trimers) [polypeptide binding]; other site 994484015655 Substrate-binding/catalytic site; other site 994484015656 Zn-binding sites [ion binding]; other site 994484015657 DNA polymerase III subunit chi; Validated; Region: PRK05728 994484015658 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 994484015659 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 994484015660 HIGH motif; other site 994484015661 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 994484015662 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 994484015663 active site 994484015664 KMSKS motif; other site 994484015665 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 994484015666 tRNA binding surface [nucleotide binding]; other site 994484015667 anticodon binding site; other site 994484015668 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 994484015669 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 994484015670 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 994484015671 S-adenosylmethionine binding site [chemical binding]; other site 994484015672 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 994484015673 IHF - DNA interface [nucleotide binding]; other site 994484015674 IHF dimer interface [polypeptide binding]; other site 994484015675 Nucleoid-associated protein [General function prediction only]; Region: COG3081 994484015676 nucleoid-associated protein NdpA; Validated; Region: PRK00378 994484015677 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 994484015678 catalytic residues [active] 994484015679 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484015680 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 994484015681 C-terminal domain interface [polypeptide binding]; other site 994484015682 GSH binding site (G-site) [chemical binding]; other site 994484015683 dimer interface [polypeptide binding]; other site 994484015684 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 994484015685 N-terminal domain interface [polypeptide binding]; other site 994484015686 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 994484015687 GIY-YIG motif/motif A; other site 994484015688 putative active site [active] 994484015689 putative metal binding site [ion binding]; other site 994484015690 SnoaL-like domain; Region: SnoaL_3; pfam13474 994484015691 SnoaL-like domain; Region: SnoaL_2; pfam12680 994484015692 cyanate transporter; Region: CynX; TIGR00896 994484015693 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484015694 putative substrate translocation pore; other site 994484015695 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484015696 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484015697 DNA-binding site [nucleotide binding]; DNA binding site 994484015698 FCD domain; Region: FCD; pfam07729 994484015699 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 994484015700 peptide binding site [polypeptide binding]; other site 994484015701 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 994484015702 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 994484015703 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 994484015704 non-specific DNA binding site [nucleotide binding]; other site 994484015705 salt bridge; other site 994484015706 sequence-specific DNA binding site [nucleotide binding]; other site 994484015707 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484015708 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484015709 Walker A/P-loop; other site 994484015710 ATP binding site [chemical binding]; other site 994484015711 Q-loop/lid; other site 994484015712 ABC transporter signature motif; other site 994484015713 Walker B; other site 994484015714 D-loop; other site 994484015715 H-loop/switch region; other site 994484015716 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484015717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015718 dimer interface [polypeptide binding]; other site 994484015719 conserved gate region; other site 994484015720 putative PBP binding loops; other site 994484015721 ABC-ATPase subunit interface; other site 994484015722 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 994484015723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015724 conserved gate region; other site 994484015725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484015726 dimer interface [polypeptide binding]; other site 994484015727 ABC-ATPase subunit interface; other site 994484015728 putative PBP binding loops; other site 994484015729 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 994484015730 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484015731 substrate binding pocket [chemical binding]; other site 994484015732 membrane-bound complex binding site; other site 994484015733 hinge residues; other site 994484015734 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 994484015735 putative hydrolase; Provisional; Region: PRK11460 994484015736 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 994484015737 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 994484015738 ATP binding site [chemical binding]; other site 994484015739 Mg++ binding site [ion binding]; other site 994484015740 motif III; other site 994484015741 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 994484015742 nucleotide binding region [chemical binding]; other site 994484015743 ATP-binding site [chemical binding]; other site 994484015744 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 994484015745 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 994484015746 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484015747 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484015748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 994484015749 YheO-like PAS domain; Region: PAS_6; pfam08348 994484015750 HTH domain; Region: HTH_22; pfam13309 994484015751 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 994484015752 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484015753 substrate binding pocket [chemical binding]; other site 994484015754 membrane-bound complex binding site; other site 994484015755 hinge residues; other site 994484015756 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 994484015757 MoaE homodimer interface [polypeptide binding]; other site 994484015758 MoaD interaction [polypeptide binding]; other site 994484015759 active site residues [active] 994484015760 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 994484015761 MoaE interaction surface [polypeptide binding]; other site 994484015762 MoeB interaction surface [polypeptide binding]; other site 994484015763 thiocarboxylated glycine; other site 994484015764 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 994484015765 trimer interface [polypeptide binding]; other site 994484015766 dimer interface [polypeptide binding]; other site 994484015767 putative active site [active] 994484015768 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 994484015769 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 994484015770 putative active site [active] 994484015771 PhoH-like protein; Region: PhoH; pfam02562 994484015772 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 994484015773 NodB motif; other site 994484015774 active site 994484015775 catalytic site [active] 994484015776 metal binding site [ion binding]; metal-binding site 994484015777 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 994484015778 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 994484015779 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 994484015780 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 994484015781 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 994484015782 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 994484015783 PilZ domain; Region: PilZ; pfam07238 994484015784 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484015785 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 994484015786 Right handed beta helix region; Region: Beta_helix; pfam13229 994484015787 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 994484015788 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 994484015789 active site 994484015790 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 994484015791 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 994484015792 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 994484015793 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 994484015794 Substrate binding site; other site 994484015795 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 994484015796 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484015797 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484015798 short chain dehydrogenase; Provisional; Region: PRK05693 994484015799 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 994484015800 NADP binding site [chemical binding]; other site 994484015801 active site 994484015802 steroid binding site; other site 994484015803 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 994484015804 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484015805 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484015806 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 994484015807 Fusaric acid resistance protein family; Region: FUSC; pfam04632 994484015808 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 994484015809 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 994484015810 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484015811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484015812 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 994484015813 putative effector binding pocket; other site 994484015814 dimerization interface [polypeptide binding]; other site 994484015815 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 994484015816 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484015817 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484015818 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 994484015819 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 994484015820 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 994484015821 active site 994484015822 phosphorylation site [posttranslational modification] 994484015823 intermolecular recognition site; other site 994484015824 dimerization interface [polypeptide binding]; other site 994484015825 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484015826 DNA binding site [nucleotide binding] 994484015827 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 994484015828 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 994484015829 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484015830 dimer interface [polypeptide binding]; other site 994484015831 phosphorylation site [posttranslational modification] 994484015832 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 994484015833 ATP binding site [chemical binding]; other site 994484015834 Mg2+ binding site [ion binding]; other site 994484015835 G-X-G motif; other site 994484015836 Cache domain; Region: Cache_1; pfam02743 994484015837 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484015838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484015839 metal binding site [ion binding]; metal-binding site 994484015840 active site 994484015841 I-site; other site 994484015842 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 994484015843 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 994484015844 cell division protein FtsZ; Validated; Region: PRK09330 994484015845 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 994484015846 nucleotide binding site [chemical binding]; other site 994484015847 SulA interaction site; other site 994484015848 cell division protein FtsA; Region: ftsA; TIGR01174 994484015849 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 994484015850 nucleotide binding site [chemical binding]; other site 994484015851 Cell division protein FtsA; Region: FtsA; pfam14450 994484015852 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 994484015853 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 994484015854 Cell division protein FtsQ; Region: FtsQ; pfam03799 994484015855 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 994484015856 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 994484015857 ATP-grasp domain; Region: ATP-grasp_4; cl17255 994484015858 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 994484015859 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484015860 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484015861 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484015862 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 994484015863 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 994484015864 active site 994484015865 homodimer interface [polypeptide binding]; other site 994484015866 cell division protein FtsW; Region: ftsW; TIGR02614 994484015867 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 994484015868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484015869 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484015870 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 994484015871 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 994484015872 Mg++ binding site [ion binding]; other site 994484015873 putative catalytic motif [active] 994484015874 putative substrate binding site [chemical binding]; other site 994484015875 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484015876 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 994484015877 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484015878 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484015879 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 994484015880 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484015881 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484015882 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484015883 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 994484015884 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 994484015885 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 994484015886 Cell division protein FtsL; Region: FtsL; pfam04999 994484015887 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 994484015888 MraW methylase family; Region: Methyltransf_5; cl17771 994484015889 cell division protein MraZ; Reviewed; Region: PRK00326 994484015890 MraZ protein; Region: MraZ; pfam02381 994484015891 MraZ protein; Region: MraZ; pfam02381 994484015892 Predicted methyltransferases [General function prediction only]; Region: COG0313 994484015893 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 994484015894 putative SAM binding site [chemical binding]; other site 994484015895 putative homodimer interface [polypeptide binding]; other site 994484015896 LppC putative lipoprotein; Region: LppC; pfam04348 994484015897 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 994484015898 putative ligand binding site [chemical binding]; other site 994484015899 hypothetical protein; Reviewed; Region: PRK12497 994484015900 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 994484015901 dimer interface [polypeptide binding]; other site 994484015902 active site 994484015903 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 994484015904 BON domain; Region: BON; pfam04972 994484015905 BON domain; Region: BON; pfam04972 994484015906 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 994484015907 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 994484015908 stringent starvation protein A; Provisional; Region: sspA; PRK09481 994484015909 C-terminal domain interface [polypeptide binding]; other site 994484015910 putative GSH binding site (G-site) [chemical binding]; other site 994484015911 dimer interface [polypeptide binding]; other site 994484015912 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 994484015913 dimer interface [polypeptide binding]; other site 994484015914 N-terminal domain interface [polypeptide binding]; other site 994484015915 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 994484015916 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 994484015917 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 994484015918 Qi binding site; other site 994484015919 intrachain domain interface; other site 994484015920 interchain domain interface [polypeptide binding]; other site 994484015921 heme bH binding site [chemical binding]; other site 994484015922 heme bL binding site [chemical binding]; other site 994484015923 Qo binding site; other site 994484015924 interchain domain interface [polypeptide binding]; other site 994484015925 intrachain domain interface; other site 994484015926 Qi binding site; other site 994484015927 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 994484015928 Qo binding site; other site 994484015929 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 994484015930 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 994484015931 [2Fe-2S] cluster binding site [ion binding]; other site 994484015932 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 994484015933 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 994484015934 23S rRNA interface [nucleotide binding]; other site 994484015935 L3 interface [polypeptide binding]; other site 994484015936 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 994484015937 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 994484015938 active site 994484015939 catalytic tetrad [active] 994484015940 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 994484015941 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484015942 active site 994484015943 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484015944 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 994484015945 conserved cys residue [active] 994484015946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484015947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484015948 Predicted ATPase [General function prediction only]; Region: COG1485 994484015949 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 994484015950 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 994484015951 active site 994484015952 HIGH motif; other site 994484015953 dimer interface [polypeptide binding]; other site 994484015954 KMSKS motif; other site 994484015955 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 994484015956 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 994484015957 hypothetical protein; Provisional; Region: PRK07482 994484015958 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 994484015959 inhibitor-cofactor binding pocket; inhibition site 994484015960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015961 catalytic residue [active] 994484015962 succinic semialdehyde dehydrogenase; Region: PLN02278 994484015963 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 994484015964 tetramerization interface [polypeptide binding]; other site 994484015965 NAD(P) binding site [chemical binding]; other site 994484015966 catalytic residues [active] 994484015967 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484015968 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 994484015969 putative DNA binding site [nucleotide binding]; other site 994484015970 putative Zn2+ binding site [ion binding]; other site 994484015971 AsnC family; Region: AsnC_trans_reg; pfam01037 994484015972 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 994484015973 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 994484015974 putative active site [active] 994484015975 Zn binding site [ion binding]; other site 994484015976 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 994484015977 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 994484015978 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 994484015979 active site 994484015980 ectoine utilization protein EutC; Validated; Region: PRK08291 994484015981 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 994484015982 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 994484015983 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 994484015984 tetramer interface [polypeptide binding]; other site 994484015985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015986 catalytic residue [active] 994484015987 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 994484015988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484015989 DNA-binding site [nucleotide binding]; DNA binding site 994484015990 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 994484015991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484015992 homodimer interface [polypeptide binding]; other site 994484015993 catalytic residue [active] 994484015994 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 994484015995 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484015996 substrate binding pocket [chemical binding]; other site 994484015997 membrane-bound complex binding site; other site 994484015998 hinge residues; other site 994484015999 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 994484016000 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484016001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484016002 ABC-ATPase subunit interface; other site 994484016003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484016004 dimer interface [polypeptide binding]; other site 994484016005 conserved gate region; other site 994484016006 putative PBP binding loops; other site 994484016007 ABC-ATPase subunit interface; other site 994484016008 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 994484016009 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484016010 Walker A/P-loop; other site 994484016011 ATP binding site [chemical binding]; other site 994484016012 Q-loop/lid; other site 994484016013 ABC transporter signature motif; other site 994484016014 Walker B; other site 994484016015 D-loop; other site 994484016016 H-loop/switch region; other site 994484016017 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 994484016018 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484016019 ligand binding site [chemical binding]; other site 994484016020 acetylornithine aminotransferase; Provisional; Region: PRK02627 994484016021 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 994484016022 inhibitor-cofactor binding pocket; inhibition site 994484016023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016024 catalytic residue [active] 994484016025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484016026 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484016027 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 994484016028 putative effector binding pocket; other site 994484016029 putative dimerization interface [polypeptide binding]; other site 994484016030 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 994484016031 PAS fold; Region: PAS_3; pfam08447 994484016032 putative active site [active] 994484016033 heme pocket [chemical binding]; other site 994484016034 RmuC family; Region: RmuC; pfam02646 994484016035 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484016036 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484016037 metal binding site [ion binding]; metal-binding site 994484016038 active site 994484016039 I-site; other site 994484016040 Protein of unknown function DUF72; Region: DUF72; pfam01904 994484016041 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 994484016042 non-specific DNA binding site [nucleotide binding]; other site 994484016043 salt bridge; other site 994484016044 sequence-specific DNA binding site [nucleotide binding]; other site 994484016045 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 994484016046 UbiA prenyltransferase family; Region: UbiA; pfam01040 994484016047 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 994484016048 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 994484016049 Subunit I/III interface [polypeptide binding]; other site 994484016050 Subunit III/IV interface [polypeptide binding]; other site 994484016051 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 994484016052 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 994484016053 D-pathway; other site 994484016054 Putative ubiquinol binding site [chemical binding]; other site 994484016055 Low-spin heme (heme b) binding site [chemical binding]; other site 994484016056 Putative water exit pathway; other site 994484016057 Binuclear center (heme o3/CuB) [ion binding]; other site 994484016058 K-pathway; other site 994484016059 Putative proton exit pathway; other site 994484016060 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 994484016061 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 994484016062 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 994484016063 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 994484016064 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 994484016065 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 994484016066 heme-binding site [chemical binding]; other site 994484016067 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 994484016068 FAD binding pocket [chemical binding]; other site 994484016069 FAD binding motif [chemical binding]; other site 994484016070 phosphate binding motif [ion binding]; other site 994484016071 beta-alpha-beta structure motif; other site 994484016072 NAD binding pocket [chemical binding]; other site 994484016073 Heme binding pocket [chemical binding]; other site 994484016074 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 994484016075 GAF domain; Region: GAF; pfam01590 994484016076 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484016077 Walker A motif; other site 994484016078 ATP binding site [chemical binding]; other site 994484016079 Walker B motif; other site 994484016080 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484016081 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 994484016082 Response regulator receiver domain; Region: Response_reg; pfam00072 994484016083 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 994484016084 active site 994484016085 phosphorylation site [posttranslational modification] 994484016086 intermolecular recognition site; other site 994484016087 dimerization interface [polypeptide binding]; other site 994484016088 Flagellin N-methylase; Region: FliB; pfam03692 994484016089 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 994484016090 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 994484016091 dimerization interface [polypeptide binding]; other site 994484016092 ligand binding site [chemical binding]; other site 994484016093 NADP binding site [chemical binding]; other site 994484016094 catalytic site [active] 994484016095 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484016096 EamA-like transporter family; Region: EamA; pfam00892 994484016097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484016098 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 994484016099 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484016100 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 994484016101 30S subunit binding site; other site 994484016102 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 994484016103 Predicted membrane protein [Function unknown]; Region: COG3223 994484016104 YebG protein; Region: YebG; pfam07130 994484016105 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 994484016106 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484016107 DNA-binding site [nucleotide binding]; DNA binding site 994484016108 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 994484016109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016110 homodimer interface [polypeptide binding]; other site 994484016111 catalytic residue [active] 994484016112 Benzoate membrane transport protein; Region: BenE; pfam03594 994484016113 benzoate transporter; Region: benE; TIGR00843 994484016114 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484016115 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 994484016116 homotrimer interaction site [polypeptide binding]; other site 994484016117 putative active site [active] 994484016118 threonine synthase; Validated; Region: PRK06260 994484016119 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 994484016120 homodimer interface [polypeptide binding]; other site 994484016121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016122 catalytic residue [active] 994484016123 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484016124 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 994484016125 dimer interface [polypeptide binding]; other site 994484016126 active site 994484016127 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484016128 folate binding site [chemical binding]; other site 994484016129 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 994484016130 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 994484016131 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 994484016132 NAD binding site [chemical binding]; other site 994484016133 Phe binding site; other site 994484016134 Uncharacterized conserved protein [Function unknown]; Region: COG2912 994484016135 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 994484016136 maleylacetoacetate isomerase; Region: maiA; TIGR01262 994484016137 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484016138 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 994484016139 dimer interface [polypeptide binding]; other site 994484016140 N-terminal domain interface [polypeptide binding]; other site 994484016141 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 994484016142 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 994484016143 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 994484016144 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 994484016145 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 994484016146 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 994484016147 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484016148 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484016149 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 994484016150 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484016151 DNA binding residues [nucleotide binding] 994484016152 dimerization interface [polypeptide binding]; other site 994484016153 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 994484016154 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 994484016155 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 994484016156 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 994484016157 amidase catalytic site [active] 994484016158 Zn binding residues [ion binding]; other site 994484016159 substrate binding site [chemical binding]; other site 994484016160 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 994484016161 homodimer interface [polypeptide binding]; other site 994484016162 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 994484016163 NAD binding site [chemical binding]; other site 994484016164 active site 994484016165 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484016166 aldolase II superfamily protein; Provisional; Region: PRK07044 994484016167 intersubunit interface [polypeptide binding]; other site 994484016168 active site 994484016169 Zn2+ binding site [ion binding]; other site 994484016170 flavodoxin; Provisional; Region: PRK05723 994484016171 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 994484016172 PAS domain; Region: PAS_9; pfam13426 994484016173 putative active site [active] 994484016174 heme pocket [chemical binding]; other site 994484016175 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 994484016176 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 994484016177 DNA binding residues [nucleotide binding] 994484016178 B12 binding domain; Region: B12-binding_2; pfam02607 994484016179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 994484016180 dihydromonapterin reductase; Provisional; Region: PRK06483 994484016181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016182 NAD(P) binding site [chemical binding]; other site 994484016183 active site 994484016184 GTP cyclohydrolase I; Reviewed; Region: PRK12606 994484016185 GTP cyclohydrolase I; Provisional; Region: PLN03044 994484016186 active site 994484016187 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 994484016188 active site 994484016189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 994484016190 HopJ type III effector protein; Region: HopJ; pfam08888 994484016191 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 994484016192 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 994484016193 inhibitor-cofactor binding pocket; inhibition site 994484016194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016195 catalytic residue [active] 994484016196 thioredoxin reductase; Provisional; Region: PRK10262 994484016197 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 994484016198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484016199 putative sulfate transport protein CysZ; Validated; Region: PRK04949 994484016200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484016201 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 994484016202 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 994484016203 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 994484016204 putative active site [active] 994484016205 putative FMN binding site [chemical binding]; other site 994484016206 putative substrate binding site [chemical binding]; other site 994484016207 putative catalytic residue [active] 994484016208 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 994484016209 catalytic residues [active] 994484016210 dimer interface [polypeptide binding]; other site 994484016211 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 994484016212 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484016213 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 994484016214 phosphate acetyltransferase; Reviewed; Region: PRK05632 994484016215 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 994484016216 DRTGG domain; Region: DRTGG; pfam07085 994484016217 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 994484016218 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484016219 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 994484016220 putative acyl-acceptor binding pocket; other site 994484016221 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 994484016222 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 994484016223 CysD dimerization site [polypeptide binding]; other site 994484016224 G1 box; other site 994484016225 putative GEF interaction site [polypeptide binding]; other site 994484016226 GTP/Mg2+ binding site [chemical binding]; other site 994484016227 Switch I region; other site 994484016228 G2 box; other site 994484016229 G3 box; other site 994484016230 Switch II region; other site 994484016231 G4 box; other site 994484016232 G5 box; other site 994484016233 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 994484016234 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 994484016235 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 994484016236 ligand-binding site [chemical binding]; other site 994484016237 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 994484016238 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 994484016239 Active Sites [active] 994484016240 Uncharacterized conserved protein [Function unknown]; Region: COG0327 994484016241 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 994484016242 serine endoprotease; Provisional; Region: PRK10898 994484016243 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 994484016244 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 994484016245 protein binding site [polypeptide binding]; other site 994484016246 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 994484016247 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 994484016248 N-terminal plug; other site 994484016249 ligand-binding site [chemical binding]; other site 994484016250 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 994484016251 Uncharacterized conserved protein [Function unknown]; Region: COG2135 994484016252 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 994484016253 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 994484016254 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 994484016255 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484016256 putative acyl-acceptor binding pocket; other site 994484016257 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 994484016258 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 994484016259 putative transporter; Provisional; Region: PRK11660 994484016260 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 994484016261 Sulfate transporter family; Region: Sulfate_transp; pfam00916 994484016262 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 994484016263 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 994484016264 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484016265 active site 994484016266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484016267 active site 994484016268 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 994484016269 ferrochelatase; Reviewed; Region: hemH; PRK00035 994484016270 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 994484016271 C-terminal domain interface [polypeptide binding]; other site 994484016272 active site 994484016273 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 994484016274 active site 994484016275 N-terminal domain interface [polypeptide binding]; other site 994484016276 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 994484016277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484016278 NAD(P) binding site [chemical binding]; other site 994484016279 active site 994484016280 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 994484016281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484016282 Protein of unknown function (DUF523); Region: DUF523; pfam04463 994484016283 Uncharacterized conserved protein [Function unknown]; Region: COG3272 994484016284 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 994484016285 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 994484016286 DNA binding residues [nucleotide binding] 994484016287 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 994484016288 B12 binding domain; Region: B12-binding_2; pfam02607 994484016289 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 994484016290 DNA photolyase; Region: DNA_photolyase; pfam00875 994484016291 short chain dehydrogenase; Validated; Region: PRK08264 994484016292 classical (c) SDRs; Region: SDR_c; cd05233 994484016293 NAD(P) binding site [chemical binding]; other site 994484016294 active site 994484016295 Flagellin N-methylase; Region: FliB; pfam03692 994484016296 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 994484016297 glutamate racemase; Provisional; Region: PRK00865 994484016298 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 994484016299 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 994484016300 ATP binding site [chemical binding]; other site 994484016301 substrate interface [chemical binding]; other site 994484016302 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 994484016303 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 994484016304 S-adenosylmethionine binding site [chemical binding]; other site 994484016305 peptide chain release factor 1; Validated; Region: prfA; PRK00591 994484016306 This domain is found in peptide chain release factors; Region: PCRF; smart00937 994484016307 RF-1 domain; Region: RF-1; pfam00472 994484016308 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 994484016309 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 994484016310 tRNA; other site 994484016311 putative tRNA binding site [nucleotide binding]; other site 994484016312 putative NADP binding site [chemical binding]; other site 994484016313 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 994484016314 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 994484016315 binding surface 994484016316 TPR motif; other site 994484016317 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 994484016318 binding surface 994484016319 TPR motif; other site 994484016320 TPR repeat; Region: TPR_11; pfam13414 994484016321 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 994484016322 binding surface 994484016323 TPR motif; other site 994484016324 TPR repeat; Region: TPR_11; pfam13414 994484016325 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 994484016326 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 994484016327 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 994484016328 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 994484016329 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 994484016330 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 994484016331 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484016332 active site 994484016333 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 994484016334 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 994484016335 5S rRNA interface [nucleotide binding]; other site 994484016336 CTC domain interface [polypeptide binding]; other site 994484016337 L16 interface [polypeptide binding]; other site 994484016338 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 994484016339 putative active site [active] 994484016340 catalytic residue [active] 994484016341 GTP-binding protein YchF; Reviewed; Region: PRK09601 994484016342 YchF GTPase; Region: YchF; cd01900 994484016343 G1 box; other site 994484016344 GTP/Mg2+ binding site [chemical binding]; other site 994484016345 Switch I region; other site 994484016346 G2 box; other site 994484016347 Switch II region; other site 994484016348 G3 box; other site 994484016349 G4 box; other site 994484016350 G5 box; other site 994484016351 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 994484016352 Transposase, Mutator family; Region: Transposase_mut; pfam00872 994484016353 MULE transposase domain; Region: MULE; pfam10551 994484016354 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 994484016355 Cache domain; Region: Cache_1; pfam02743 994484016356 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 994484016357 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484016358 dimerization interface [polypeptide binding]; other site 994484016359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484016360 dimer interface [polypeptide binding]; other site 994484016361 putative CheW interface [polypeptide binding]; other site 994484016362 D-mannose binding lectin; Region: B_lectin; pfam01453 994484016363 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 specifically...; Region: B_lectin; cd00028 994484016364 mannose binding site [chemical binding]; other site 994484016365 dimerization interface [polypeptide binding]; other site 994484016366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484016367 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484016368 putative substrate translocation pore; other site 994484016369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484016370 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484016371 dimer interface [polypeptide binding]; other site 994484016372 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 994484016373 putative CheW interface [polypeptide binding]; other site 994484016374 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 994484016375 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 994484016376 PAS domain; Region: PAS_9; pfam13426 994484016377 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 994484016378 putative active site [active] 994484016379 heme pocket [chemical binding]; other site 994484016380 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 994484016381 PAS domain; Region: PAS_9; pfam13426 994484016382 putative active site [active] 994484016383 heme pocket [chemical binding]; other site 994484016384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484016385 dimer interface [polypeptide binding]; other site 994484016386 putative CheW interface [polypeptide binding]; other site 994484016387 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 994484016388 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 994484016389 active site clefts [active] 994484016390 zinc binding site [ion binding]; other site 994484016391 dimer interface [polypeptide binding]; other site 994484016392 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 994484016393 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 994484016394 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 994484016395 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 994484016396 mce related protein; Region: MCE; pfam02470 994484016397 mce related protein; Region: MCE; pfam02470 994484016398 mce related protein; Region: MCE; pfam02470 994484016399 mce related protein; Region: MCE; pfam02470 994484016400 mce related protein; Region: MCE; pfam02470 994484016401 mce related protein; Region: MCE; pfam02470 994484016402 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484016403 Paraquat-inducible protein A; Region: PqiA; pfam04403 994484016404 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 994484016405 TMAO/DMSO reductase; Reviewed; Region: PRK05363 994484016406 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 994484016407 Moco binding site; other site 994484016408 metal coordination site [ion binding]; other site 994484016409 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 994484016410 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 994484016411 ketol-acid reductoisomerase; Provisional; Region: PRK05479 994484016412 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 994484016413 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 994484016414 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 994484016415 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 994484016416 putative valine binding site [chemical binding]; other site 994484016417 dimer interface [polypeptide binding]; other site 994484016418 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 994484016419 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 994484016420 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 994484016421 PYR/PP interface [polypeptide binding]; other site 994484016422 dimer interface [polypeptide binding]; other site 994484016423 TPP binding site [chemical binding]; other site 994484016424 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 994484016425 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 994484016426 TPP-binding site [chemical binding]; other site 994484016427 dimer interface [polypeptide binding]; other site 994484016428 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 994484016429 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 994484016430 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 994484016431 TPR motif; other site 994484016432 binding surface 994484016433 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 994484016434 Transglycosylase; Region: Transgly; pfam00912 994484016435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 994484016436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 994484016437 AAA domain; Region: AAA_33; pfam13671 994484016438 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 994484016439 ATP-binding site [chemical binding]; other site 994484016440 Gluconate-6-phosphate binding site [chemical binding]; other site 994484016441 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 994484016442 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484016443 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 994484016444 TfoX C-terminal domain; Region: TfoX_C; pfam04994 994484016445 Protein of unknown function, DUF399; Region: DUF399; cl01139 994484016446 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 994484016447 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 994484016448 Walker A/P-loop; other site 994484016449 ATP binding site [chemical binding]; other site 994484016450 Q-loop/lid; other site 994484016451 ABC transporter signature motif; other site 994484016452 Walker B; other site 994484016453 D-loop; other site 994484016454 H-loop/switch region; other site 994484016455 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 994484016456 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 994484016457 ABC-ATPase subunit interface; other site 994484016458 dimer interface [polypeptide binding]; other site 994484016459 putative PBP binding regions; other site 994484016460 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 994484016461 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 994484016462 intersubunit interface [polypeptide binding]; other site 994484016463 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 994484016464 iron-sulfur cluster [ion binding]; other site 994484016465 [2Fe-2S] cluster binding site [ion binding]; other site 994484016466 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 994484016467 hypothetical protein; Provisional; Region: PRK08960 994484016468 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 994484016469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016470 homodimer interface [polypeptide binding]; other site 994484016471 catalytic residue [active] 994484016472 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 994484016473 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 994484016474 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 994484016475 active site 994484016476 HIGH motif; other site 994484016477 nucleotide binding site [chemical binding]; other site 994484016478 KMSKS motif; other site 994484016479 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 994484016480 Na binding site [ion binding]; other site 994484016481 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 994484016482 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 994484016483 putative active site [active] 994484016484 heme pocket [chemical binding]; other site 994484016485 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484016486 dimer interface [polypeptide binding]; other site 994484016487 phosphorylation site [posttranslational modification] 994484016488 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 994484016489 ATP binding site [chemical binding]; other site 994484016490 Mg2+ binding site [ion binding]; other site 994484016491 G-X-G motif; other site 994484016492 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484016493 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 994484016494 active site 994484016495 phosphorylation site [posttranslational modification] 994484016496 intermolecular recognition site; other site 994484016497 dimerization interface [polypeptide binding]; other site 994484016498 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484016499 Walker A motif; other site 994484016500 ATP binding site [chemical binding]; other site 994484016501 Walker B motif; other site 994484016502 arginine finger; other site 994484016503 poly(A) polymerase; Region: pcnB; TIGR01942 994484016504 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 994484016505 active site 994484016506 NTP binding site [chemical binding]; other site 994484016507 metal binding triad [ion binding]; metal-binding site 994484016508 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 994484016509 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 994484016510 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 994484016511 catalytic center binding site [active] 994484016512 ATP binding site [chemical binding]; other site 994484016513 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 994484016514 oligomerization interface [polypeptide binding]; other site 994484016515 active site 994484016516 metal binding site [ion binding]; metal-binding site 994484016517 Pantoate-beta-alanine ligase; Region: PanC; cd00560 994484016518 pantoate--beta-alanine ligase; Region: panC; TIGR00018 994484016519 active site 994484016520 ATP-binding site [chemical binding]; other site 994484016521 pantoate-binding site; other site 994484016522 HXXH motif; other site 994484016523 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 994484016524 tetramerization interface [polypeptide binding]; other site 994484016525 active site 994484016526 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 994484016527 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 994484016528 active site 994484016529 dimer interface [polypeptide binding]; other site 994484016530 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 994484016531 dimer interface [polypeptide binding]; other site 994484016532 active site 994484016533 acetyl-CoA synthetase; Provisional; Region: PRK00174 994484016534 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 994484016535 active site 994484016536 CoA binding site [chemical binding]; other site 994484016537 acyl-activating enzyme (AAE) consensus motif; other site 994484016538 AMP binding site [chemical binding]; other site 994484016539 acetate binding site [chemical binding]; other site 994484016540 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 994484016541 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 994484016542 putative RNA binding site [nucleotide binding]; other site 994484016543 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 994484016544 S-adenosylmethionine binding site [chemical binding]; other site 994484016545 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484016546 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484016547 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 994484016548 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 994484016549 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 994484016550 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 994484016551 Pilin (bacterial filament); Region: Pilin; pfam00114 994484016552 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 994484016553 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 994484016554 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 994484016555 Walker A motif; other site 994484016556 ATP binding site [chemical binding]; other site 994484016557 Walker B motif; other site 994484016558 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 994484016559 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 994484016560 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 994484016561 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 994484016562 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 994484016563 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 994484016564 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 994484016565 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 994484016566 CoA-binding site [chemical binding]; other site 994484016567 ATP-binding [chemical binding]; other site 994484016568 DNA gyrase inhibitor; Reviewed; Region: PRK00418 994484016569 Predicted membrane protein [Function unknown]; Region: COG3235 994484016570 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 994484016571 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 994484016572 active site 1 [active] 994484016573 dimer interface [polypeptide binding]; other site 994484016574 hexamer interface [polypeptide binding]; other site 994484016575 active site 2 [active] 994484016576 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 994484016577 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484016578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484016579 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 994484016580 dimerization interface [polypeptide binding]; other site 994484016581 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 994484016582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 994484016583 MOSC domain; Region: MOSC; pfam03473 994484016584 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 994484016585 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 994484016586 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484016587 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 994484016588 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484016589 dimerization interface [polypeptide binding]; other site 994484016590 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484016591 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484016592 dimer interface [polypeptide binding]; other site 994484016593 putative CheW interface [polypeptide binding]; other site 994484016594 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 994484016595 Clp amino terminal domain; Region: Clp_N; pfam02861 994484016596 Clp amino terminal domain; Region: Clp_N; pfam02861 994484016597 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484016598 Walker A motif; other site 994484016599 ATP binding site [chemical binding]; other site 994484016600 Walker B motif; other site 994484016601 arginine finger; other site 994484016602 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484016603 Walker A motif; other site 994484016604 ATP binding site [chemical binding]; other site 994484016605 Walker B motif; other site 994484016606 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 994484016607 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 994484016608 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 994484016609 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 994484016610 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 994484016611 RNA binding surface [nucleotide binding]; other site 994484016612 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 994484016613 active site 994484016614 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 994484016615 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; pfam09583 994484016616 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 994484016617 PAS domain; Region: PAS; smart00091 994484016618 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484016619 dimer interface [polypeptide binding]; other site 994484016620 phosphorylation site [posttranslational modification] 994484016621 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 994484016622 ATP binding site [chemical binding]; other site 994484016623 Mg2+ binding site [ion binding]; other site 994484016624 G-X-G motif; other site 994484016625 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 994484016626 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 994484016627 active site 994484016628 phosphorylation site [posttranslational modification] 994484016629 intermolecular recognition site; other site 994484016630 dimerization interface [polypeptide binding]; other site 994484016631 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484016632 Walker A motif; other site 994484016633 ATP binding site [chemical binding]; other site 994484016634 Walker B motif; other site 994484016635 arginine finger; other site 994484016636 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484016637 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 994484016638 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484016639 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 994484016640 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 994484016641 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 994484016642 PilX N-terminal; Region: PilX_N; pfam14341 994484016643 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 994484016644 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 994484016645 Type II transport protein GspH; Region: GspH; pfam12019 994484016646 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 994484016647 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 994484016648 Type II transport protein GspH; Region: GspH; pfam12019 994484016649 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 994484016650 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 994484016651 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 994484016652 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484016653 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 994484016654 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 994484016655 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484016656 active site 994484016657 HIGH motif; other site 994484016658 nucleotide binding site [chemical binding]; other site 994484016659 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 994484016660 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 994484016661 active site 994484016662 KMSKS motif; other site 994484016663 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 994484016664 tRNA binding surface [nucleotide binding]; other site 994484016665 anticodon binding site; other site 994484016666 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 994484016667 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 994484016668 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 994484016669 active site 994484016670 Riboflavin kinase; Region: Flavokinase; smart00904 994484016671 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 994484016672 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 994484016673 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 994484016674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484016675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 994484016676 CreA protein; Region: CreA; pfam05981 994484016677 gamma-glutamyl kinase; Provisional; Region: PRK05429 994484016678 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 994484016679 nucleotide binding site [chemical binding]; other site 994484016680 homotetrameric interface [polypeptide binding]; other site 994484016681 putative phosphate binding site [ion binding]; other site 994484016682 putative allosteric binding site; other site 994484016683 PUA domain; Region: PUA; pfam01472 994484016684 GTPase CgtA; Reviewed; Region: obgE; PRK12298 994484016685 GTP1/OBG; Region: GTP1_OBG; pfam01018 994484016686 Obg GTPase; Region: Obg; cd01898 994484016687 G1 box; other site 994484016688 GTP/Mg2+ binding site [chemical binding]; other site 994484016689 Switch I region; other site 994484016690 G2 box; other site 994484016691 G3 box; other site 994484016692 Switch II region; other site 994484016693 G4 box; other site 994484016694 G5 box; other site 994484016695 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 994484016696 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 994484016697 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 994484016698 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 994484016699 substrate binding pocket [chemical binding]; other site 994484016700 chain length determination region; other site 994484016701 substrate-Mg2+ binding site; other site 994484016702 catalytic residues [active] 994484016703 aspartate-rich region 1; other site 994484016704 active site lid residues [active] 994484016705 aspartate-rich region 2; other site 994484016706 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 994484016707 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 994484016708 PhnA protein; Region: PhnA; pfam03831 994484016709 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 994484016710 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 994484016711 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484016712 hypothetical protein; Provisional; Region: PRK05208 994484016713 AAA domain; Region: AAA_32; pfam13654 994484016714 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 994484016715 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 994484016716 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 994484016717 transcription elongation factor regulatory protein; Validated; Region: PRK06342 994484016718 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 994484016719 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 994484016720 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484016721 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484016722 ABC transporter; Region: ABC_tran_2; pfam12848 994484016723 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484016724 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484016725 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 994484016726 putative active site [active] 994484016727 heme pocket [chemical binding]; other site 994484016728 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 994484016729 putative active site [active] 994484016730 heme pocket [chemical binding]; other site 994484016731 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 994484016732 PAS domain; Region: PAS_9; pfam13426 994484016733 putative active site [active] 994484016734 heme pocket [chemical binding]; other site 994484016735 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484016736 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484016737 metal binding site [ion binding]; metal-binding site 994484016738 active site 994484016739 I-site; other site 994484016740 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 994484016741 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484016742 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 994484016743 dimer interface [polypeptide binding]; other site 994484016744 active site 994484016745 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484016746 folate binding site [chemical binding]; other site 994484016747 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 994484016748 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484016749 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484016750 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484016751 DNA-binding site [nucleotide binding]; DNA binding site 994484016752 FCD domain; Region: FCD; pfam07729 994484016753 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484016754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484016755 DNA-binding site [nucleotide binding]; DNA binding site 994484016756 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 994484016757 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 994484016758 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 994484016759 P-loop, Walker A motif; other site 994484016760 Base recognition motif; other site 994484016761 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 994484016762 Uncharacterized small protein [Function unknown]; Region: COG2879 994484016763 carbon starvation protein A; Provisional; Region: PRK15015 994484016764 Carbon starvation protein CstA; Region: CstA; pfam02554 994484016765 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 994484016766 DNA repair protein RadA; Provisional; Region: PRK11823 994484016767 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484016768 Walker A motif; other site 994484016769 ATP binding site [chemical binding]; other site 994484016770 Walker B motif; other site 994484016771 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 994484016772 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 994484016773 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 994484016774 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 994484016775 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 994484016776 tetramer interface [polypeptide binding]; other site 994484016777 heme binding pocket [chemical binding]; other site 994484016778 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 994484016779 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 994484016780 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 994484016781 ferredoxin-NADP reductase; Provisional; Region: PRK10926 994484016782 FAD binding pocket [chemical binding]; other site 994484016783 FAD binding motif [chemical binding]; other site 994484016784 phosphate binding motif [ion binding]; other site 994484016785 beta-alpha-beta structure motif; other site 994484016786 NAD binding pocket [chemical binding]; other site 994484016787 transcriptional regulator TraR; Provisional; Region: PRK13870 994484016788 Autoinducer binding domain; Region: Autoind_bind; pfam03472 994484016789 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484016790 DNA binding residues [nucleotide binding] 994484016791 dimerization interface [polypeptide binding]; other site 994484016792 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 994484016793 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 994484016794 S-adenosylmethionine binding site [chemical binding]; other site 994484016795 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 994484016796 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 994484016797 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 994484016798 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 994484016799 H+ Antiporter protein; Region: 2A0121; TIGR00900 994484016800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484016801 putative substrate translocation pore; other site 994484016802 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 994484016803 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 994484016804 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 994484016805 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 994484016806 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 994484016807 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 994484016808 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 994484016809 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 994484016810 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 994484016811 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 994484016812 sequence-specific DNA binding site [nucleotide binding]; other site 994484016813 salt bridge; other site 994484016814 DJ-1 family protein; Region: not_thiJ; TIGR01383 994484016815 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 994484016816 conserved cys residue [active] 994484016817 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 994484016818 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 994484016819 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 994484016820 S-adenosylmethionine binding site [chemical binding]; other site 994484016821 Dehydroquinase class II; Region: DHquinase_II; pfam01220 994484016822 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 994484016823 active site 994484016824 trimer interface [polypeptide binding]; other site 994484016825 dimer interface [polypeptide binding]; other site 994484016826 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 994484016827 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 994484016828 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 994484016829 shikimate binding site; other site 994484016830 NAD(P) binding site [chemical binding]; other site 994484016831 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484016832 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484016833 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 994484016834 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 994484016835 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 994484016836 dimer interface [polypeptide binding]; other site 994484016837 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 994484016838 active site 994484016839 Fe binding site [ion binding]; other site 994484016840 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484016841 D-galactonate transporter; Region: 2A0114; TIGR00893 994484016842 putative substrate translocation pore; other site 994484016843 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 994484016844 EamA-like transporter family; Region: EamA; pfam00892 994484016845 Transcriptional regulator [Transcription]; Region: IclR; COG1414 994484016846 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 994484016847 Bacterial transcriptional regulator; Region: IclR; pfam01614 994484016848 Predicted metalloprotease [General function prediction only]; Region: COG2321 994484016849 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 994484016850 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 994484016851 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 994484016852 motif II; other site 994484016853 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 994484016854 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 994484016855 active site 994484016856 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 994484016857 catalytic triad [active] 994484016858 dimer interface [polypeptide binding]; other site 994484016859 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 994484016860 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 994484016861 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 994484016862 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 994484016863 putative active site [active] 994484016864 Zn binding site [ion binding]; other site 994484016865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484016866 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 994484016867 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 994484016868 DEAD-like helicases superfamily; Region: DEXDc; smart00487 994484016869 ATP binding site [chemical binding]; other site 994484016870 Mg++ binding site [ion binding]; other site 994484016871 motif III; other site 994484016872 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 994484016873 nucleotide binding region [chemical binding]; other site 994484016874 ATP-binding site [chemical binding]; other site 994484016875 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 994484016876 EamA-like transporter family; Region: EamA; pfam00892 994484016877 EamA-like transporter family; Region: EamA; pfam00892 994484016878 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 994484016879 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 994484016880 putative DNA binding site [nucleotide binding]; other site 994484016881 putative Zn2+ binding site [ion binding]; other site 994484016882 AsnC family; Region: AsnC_trans_reg; pfam01037 994484016883 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 994484016884 active site 994484016885 catalytic site [active] 994484016886 substrate binding site [chemical binding]; other site 994484016887 Uncharacterized conserved protein [Function unknown]; Region: COG1432 994484016888 LabA_like proteins; Region: LabA; cd10911 994484016889 putative metal binding site [ion binding]; other site 994484016890 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 994484016891 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 994484016892 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 994484016893 putative catalytic site [active] 994484016894 putative metal binding site [ion binding]; other site 994484016895 putative phosphate binding site [ion binding]; other site 994484016896 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 994484016897 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 994484016898 ATP binding site [chemical binding]; other site 994484016899 putative Mg++ binding site [ion binding]; other site 994484016900 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 994484016901 nucleotide binding region [chemical binding]; other site 994484016902 ATP-binding site [chemical binding]; other site 994484016903 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 994484016904 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 994484016905 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 994484016906 Cation efflux family; Region: Cation_efflux; cl00316 994484016907 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 994484016908 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484016909 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 994484016910 putative DNA binding site [nucleotide binding]; other site 994484016911 putative Zn2+ binding site [ion binding]; other site 994484016912 AsnC family; Region: AsnC_trans_reg; pfam01037 994484016913 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 994484016914 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 994484016915 pseudouridine synthase; Region: TIGR00093 994484016916 active site 994484016917 AMP nucleosidase; Provisional; Region: PRK08292 994484016918 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 994484016919 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 994484016920 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 994484016921 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484016922 active site 994484016923 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 994484016924 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 994484016925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484016926 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484016927 dimer interface [polypeptide binding]; other site 994484016928 phosphorylation site [posttranslational modification] 994484016929 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 994484016930 ATP binding site [chemical binding]; other site 994484016931 Mg2+ binding site [ion binding]; other site 994484016932 G-X-G motif; other site 994484016933 Response regulator receiver domain; Region: Response_reg; pfam00072 994484016934 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 994484016935 active site 994484016936 phosphorylation site [posttranslational modification] 994484016937 intermolecular recognition site; other site 994484016938 dimerization interface [polypeptide binding]; other site 994484016939 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 994484016940 dimer interface [polypeptide binding]; other site 994484016941 substrate binding site [chemical binding]; other site 994484016942 ATP binding site [chemical binding]; other site 994484016943 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 994484016944 thiamine phosphate binding site [chemical binding]; other site 994484016945 active site 994484016946 pyrophosphate binding site [ion binding]; other site 994484016947 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 994484016948 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 994484016949 inhibitor-cofactor binding pocket; inhibition site 994484016950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484016951 catalytic residue [active] 994484016952 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 994484016953 Sel1-like repeats; Region: SEL1; smart00671 994484016954 Sel1-like repeats; Region: SEL1; smart00671 994484016955 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 994484016956 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 994484016957 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 994484016958 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 994484016959 FeS/SAM binding site; other site 994484016960 TRAM domain; Region: TRAM; pfam01938 994484016961 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 994484016962 PhoH-like protein; Region: PhoH; pfam02562 994484016963 metal-binding heat shock protein; Provisional; Region: PRK00016 994484016964 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 994484016965 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 994484016966 Transporter associated domain; Region: CorC_HlyC; smart01091 994484016967 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 994484016968 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 994484016969 putative active site [active] 994484016970 catalytic triad [active] 994484016971 putative dimer interface [polypeptide binding]; other site 994484016972 Uncharacterized conserved protein [Function unknown]; Region: COG1434 994484016973 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 994484016974 putative active site [active] 994484016975 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 994484016976 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 994484016977 HIGH motif; other site 994484016978 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 994484016979 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484016980 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484016981 active site 994484016982 KMSKS motif; other site 994484016983 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 994484016984 tRNA binding surface [nucleotide binding]; other site 994484016985 Lipopolysaccharide-assembly; Region: LptE; cl01125 994484016986 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 994484016987 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 994484016988 Domain of unknown function; Region: DUF331; cl01149 994484016989 Transglycosylase SLT domain; Region: SLT_2; pfam13406 994484016990 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484016991 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484016992 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 994484016993 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 994484016994 dimer interface [polypeptide binding]; other site 994484016995 catalytic triad [active] 994484016996 lipoyl synthase; Provisional; Region: PRK05481 994484016997 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 994484016998 FeS/SAM binding site; other site 994484016999 lipoate-protein ligase B; Provisional; Region: PRK14342 994484017000 hypothetical protein; Provisional; Region: PRK00341 994484017001 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 994484017002 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 994484017003 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 994484017004 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 994484017005 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 994484017006 Sporulation related domain; Region: SPOR; pfam05036 994484017007 Transglycosylase SLT domain; Region: SLT_2; pfam13406 994484017008 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484017009 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484017010 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 994484017011 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 994484017012 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 994484017013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 994484017014 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 994484017015 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 994484017016 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 994484017017 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 994484017018 active site 994484017019 (T/H)XGH motif; other site 994484017020 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 994484017021 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 994484017022 putative catalytic cysteine [active] 994484017023 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 994484017024 active site 994484017025 DNA binding site [nucleotide binding] 994484017026 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 994484017027 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 994484017028 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 994484017029 active site 994484017030 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 994484017031 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 994484017032 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 994484017033 putative active site [active] 994484017034 putative catalytic site [active] 994484017035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 994484017036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 994484017037 Peptidase C13 family; Region: Peptidase_C13; pfam01650 994484017038 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 994484017039 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 994484017040 NAD binding site [chemical binding]; other site 994484017041 active site 994484017042 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 994484017043 aromatic acid decarboxylase; Validated; Region: PRK05920 994484017044 Flavoprotein; Region: Flavoprotein; pfam02441 994484017045 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 994484017046 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 994484017047 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 994484017048 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 994484017049 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 994484017050 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 994484017051 putative active site [active] 994484017052 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484017053 Walker A motif; other site 994484017054 ATP binding site [chemical binding]; other site 994484017055 Walker B motif; other site 994484017056 arginine finger; other site 994484017057 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484017058 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 994484017059 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484017060 NAD(P) binding site [chemical binding]; other site 994484017061 catalytic residues [active] 994484017062 ethanolamine permease; Region: 2A0305; TIGR00908 994484017063 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 994484017064 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 994484017065 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 994484017066 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484017067 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484017068 Coenzyme A binding pocket [chemical binding]; other site 994484017069 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 994484017070 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 994484017071 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 994484017072 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 994484017073 dimer interface [polypeptide binding]; other site 994484017074 substrate binding site [chemical binding]; other site 994484017075 metal binding sites [ion binding]; metal-binding site 994484017076 Predicted transcriptional regulator [Transcription]; Region: COG2932 994484017077 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 994484017078 Catalytic site [active] 994484017079 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 994484017080 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 994484017081 active site 994484017082 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 994484017083 homodimer interface [polypeptide binding]; other site 994484017084 chemical substrate binding site [chemical binding]; other site 994484017085 oligomer interface [polypeptide binding]; other site 994484017086 metal binding site [ion binding]; metal-binding site 994484017087 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 994484017088 Part of AAA domain; Region: AAA_19; pfam13245 994484017089 Uncharacterized conserved protein [Function unknown]; Region: COG3410 994484017090 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 994484017091 active site 994484017092 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 994484017093 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 994484017094 NAD(P) binding site [chemical binding]; other site 994484017095 catalytic residues [active] 994484017096 homoserine dehydrogenase; Provisional; Region: PRK06270 994484017097 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 994484017098 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 994484017099 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484017100 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 994484017101 AsnC family; Region: AsnC_trans_reg; pfam01037 994484017102 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 994484017103 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 994484017104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484017105 catalytic residue [active] 994484017106 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484017107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484017108 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484017109 dimerization interface [polypeptide binding]; other site 994484017110 substrate binding pocket [chemical binding]; other site 994484017111 S-methylmethionine transporter; Provisional; Region: PRK11387 994484017112 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 994484017113 cystathionine gamma-synthase; Provisional; Region: PRK08249 994484017114 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 994484017115 homodimer interface [polypeptide binding]; other site 994484017116 substrate-cofactor binding pocket; other site 994484017117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484017118 catalytic residue [active] 994484017119 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484017120 RHS Repeat; Region: RHS_repeat; pfam05593 994484017121 RHS Repeat; Region: RHS_repeat; pfam05593 994484017122 RHS Repeat; Region: RHS_repeat; cl11982 994484017123 RHS Repeat; Region: RHS_repeat; pfam05593 994484017124 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 994484017125 RHS Repeat; Region: RHS_repeat; pfam05593 994484017126 RHS Repeat; Region: RHS_repeat; cl11982 994484017127 RHS Repeat; Region: RHS_repeat; pfam05593 994484017128 RHS Repeat; Region: RHS_repeat; pfam05593 994484017129 RHS protein; Region: RHS; pfam03527 994484017130 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484017131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484017132 Coenzyme A binding pocket [chemical binding]; other site 994484017133 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 994484017134 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 994484017135 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 994484017136 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484017137 Putative methyltransferase; Region: Methyltransf_20; pfam12147 994484017138 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 994484017139 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 994484017140 active site 994484017141 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 994484017142 active site 994484017143 catalytic residues [active] 994484017144 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 994484017145 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484017146 putative acyl-acceptor binding pocket; other site 994484017147 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 994484017148 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 994484017149 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 994484017150 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 994484017151 Predicted membrane protein [Function unknown]; Region: COG3766 994484017152 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 994484017153 Ion channel; Region: Ion_trans_2; pfam07885 994484017154 TrkA-N domain; Region: TrkA_N; pfam02254 994484017155 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 994484017156 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 994484017157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 994484017158 Predicted secreted protein [Function unknown]; Region: COG5445 994484017159 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 994484017160 Predicted secreted protein [Function unknown]; Region: COG5445 994484017161 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 994484017162 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 994484017163 MG2 domain; Region: A2M_N; pfam01835 994484017164 Alpha-2-macroglobulin family; Region: A2M; pfam00207 994484017165 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 994484017166 surface patch; other site 994484017167 thioester region; other site 994484017168 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 994484017169 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; pfam09909 994484017170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 994484017171 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 994484017172 Fic family protein [Function unknown]; Region: COG3177 994484017173 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 994484017174 Fic/DOC family; Region: Fic; pfam02661 994484017175 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 994484017176 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 994484017177 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 994484017178 substrate binding pocket [chemical binding]; other site 994484017179 chain length determination region; other site 994484017180 substrate-Mg2+ binding site; other site 994484017181 catalytic residues [active] 994484017182 aspartate-rich region 1; other site 994484017183 active site lid residues [active] 994484017184 aspartate-rich region 2; other site 994484017185 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 994484017186 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 994484017187 TPP-binding site; other site 994484017188 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 994484017189 PYR/PP interface [polypeptide binding]; other site 994484017190 dimer interface [polypeptide binding]; other site 994484017191 TPP binding site [chemical binding]; other site 994484017192 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484017193 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 994484017194 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 994484017195 N-terminal plug; other site 994484017196 ligand-binding site [chemical binding]; other site 994484017197 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 994484017198 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 994484017199 cobalamin binding residues [chemical binding]; other site 994484017200 putative BtuC binding residues; other site 994484017201 dimer interface [polypeptide binding]; other site 994484017202 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 994484017203 dimerization interface [polypeptide binding]; other site 994484017204 active site 994484017205 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484017206 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 994484017207 substrate binding pocket [chemical binding]; other site 994484017208 membrane-bound complex binding site; other site 994484017209 hinge residues; other site 994484017210 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 994484017211 tetramer interfaces [polypeptide binding]; other site 994484017212 binuclear metal-binding site [ion binding]; other site 994484017213 thiamine monophosphate kinase; Provisional; Region: PRK05731 994484017214 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 994484017215 ATP binding site [chemical binding]; other site 994484017216 dimerization interface [polypeptide binding]; other site 994484017217 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 994484017218 putative RNA binding site [nucleotide binding]; other site 994484017219 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 994484017220 homopentamer interface [polypeptide binding]; other site 994484017221 active site 994484017222 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 994484017223 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 994484017224 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 994484017225 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 994484017226 Lumazine binding domain; Region: Lum_binding; pfam00677 994484017227 Lumazine binding domain; Region: Lum_binding; pfam00677 994484017228 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 994484017229 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 994484017230 catalytic motif [active] 994484017231 Zn binding site [ion binding]; other site 994484017232 RibD C-terminal domain; Region: RibD_C; cl17279 994484017233 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 994484017234 ATP cone domain; Region: ATP-cone; pfam03477 994484017235 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 994484017236 Predicted methyltransferase [General function prediction only]; Region: COG3897 994484017237 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 994484017238 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 994484017239 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 994484017240 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 994484017241 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 994484017242 Walker A/P-loop; other site 994484017243 ATP binding site [chemical binding]; other site 994484017244 Q-loop/lid; other site 994484017245 ABC transporter signature motif; other site 994484017246 Walker B; other site 994484017247 D-loop; other site 994484017248 H-loop/switch region; other site 994484017249 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 994484017250 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 994484017251 FtsX-like permease family; Region: FtsX; pfam02687 994484017252 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 994484017253 OmpW family; Region: OmpW; cl17427 994484017254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017255 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484017256 NAD(P) binding site [chemical binding]; other site 994484017257 active site 994484017258 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 994484017259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484017260 NAD(P) binding site [chemical binding]; other site 994484017261 active site 994484017262 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 994484017263 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 994484017264 ATP binding site [chemical binding]; other site 994484017265 putative Mg++ binding site [ion binding]; other site 994484017266 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 994484017267 nucleotide binding region [chemical binding]; other site 994484017268 ATP-binding site [chemical binding]; other site 994484017269 DEAD/H associated; Region: DEAD_assoc; pfam08494 994484017270 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 994484017271 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 994484017272 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484017273 Protein of unknown function DUF72; Region: DUF72; pfam01904 994484017274 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 994484017275 putative catalytic site [active] 994484017276 putative metal binding site [ion binding]; other site 994484017277 putative phosphate binding site [ion binding]; other site 994484017278 cardiolipin synthase 2; Provisional; Region: PRK11263 994484017279 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 994484017280 putative active site [active] 994484017281 catalytic site [active] 994484017282 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 994484017283 putative active site [active] 994484017284 catalytic site [active] 994484017285 Predicted integral membrane protein [Function unknown]; Region: COG0392 994484017286 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 994484017287 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484017288 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 994484017289 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484017290 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 994484017291 conserved cys residue [active] 994484017292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484017293 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 994484017294 Isochorismatase family; Region: Isochorismatase; pfam00857 994484017295 catalytic triad [active] 994484017296 conserved cis-peptide bond; other site 994484017297 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 994484017298 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 994484017299 non-specific DNA binding site [nucleotide binding]; other site 994484017300 salt bridge; other site 994484017301 sequence-specific DNA binding site [nucleotide binding]; other site 994484017302 AAA ATPase domain; Region: AAA_16; pfam13191 994484017303 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 994484017304 binding surface 994484017305 TPR motif; other site 994484017306 Tetratricopeptide repeat; Region: TPR_12; pfam13424 994484017307 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 994484017308 TPR motif; other site 994484017309 binding surface 994484017310 TPR repeat; Region: TPR_11; pfam13414 994484017311 MAC/Perforin domain; Region: MACPF; cl02616 994484017312 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 994484017313 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 994484017314 dimer interface [polypeptide binding]; other site 994484017315 ssDNA binding site [nucleotide binding]; other site 994484017316 tetramer (dimer of dimers) interface [polypeptide binding]; other site 994484017317 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484017318 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484017319 putative substrate translocation pore; other site 994484017320 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 994484017321 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 994484017322 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 994484017323 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 994484017324 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 994484017325 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 994484017326 heme binding site [chemical binding]; other site 994484017327 ferroxidase pore; other site 994484017328 ferroxidase diiron center [ion binding]; other site 994484017329 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 994484017330 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 994484017331 tetramer interface [polypeptide binding]; other site 994484017332 heme binding pocket [chemical binding]; other site 994484017333 NADPH binding site [chemical binding]; other site 994484017334 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 994484017335 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 994484017336 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 994484017337 alphaNTD homodimer interface [polypeptide binding]; other site 994484017338 alphaNTD - beta interaction site [polypeptide binding]; other site 994484017339 alphaNTD - beta' interaction site [polypeptide binding]; other site 994484017340 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 994484017341 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 994484017342 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 994484017343 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 994484017344 RNA binding surface [nucleotide binding]; other site 994484017345 30S ribosomal protein S11; Validated; Region: PRK05309 994484017346 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 994484017347 30S ribosomal protein S13; Region: bact_S13; TIGR03631 994484017348 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 994484017349 SecY translocase; Region: SecY; pfam00344 994484017350 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 994484017351 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 994484017352 23S rRNA binding site [nucleotide binding]; other site 994484017353 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 994484017354 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 994484017355 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 994484017356 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 994484017357 5S rRNA interface [nucleotide binding]; other site 994484017358 23S rRNA interface [nucleotide binding]; other site 994484017359 L5 interface [polypeptide binding]; other site 994484017360 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 994484017361 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 994484017362 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 994484017363 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 994484017364 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 994484017365 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 994484017366 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 994484017367 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 994484017368 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 994484017369 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 994484017370 RNA binding site [nucleotide binding]; other site 994484017371 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 994484017372 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 994484017373 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 994484017374 23S rRNA interface [nucleotide binding]; other site 994484017375 putative translocon interaction site; other site 994484017376 signal recognition particle (SRP54) interaction site; other site 994484017377 L23 interface [polypeptide binding]; other site 994484017378 trigger factor interaction site; other site 994484017379 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 994484017380 23S rRNA interface [nucleotide binding]; other site 994484017381 5S rRNA interface [nucleotide binding]; other site 994484017382 putative antibiotic binding site [chemical binding]; other site 994484017383 L25 interface [polypeptide binding]; other site 994484017384 L27 interface [polypeptide binding]; other site 994484017385 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 994484017386 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 994484017387 G-X-X-G motif; other site 994484017388 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 994484017389 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 994484017390 putative translocon binding site; other site 994484017391 protein-rRNA interface [nucleotide binding]; other site 994484017392 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 994484017393 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 994484017394 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 994484017395 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 994484017396 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 994484017397 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 994484017398 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 994484017399 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 994484017400 elongation factor Tu; Reviewed; Region: PRK00049 994484017401 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 994484017402 G1 box; other site 994484017403 GEF interaction site [polypeptide binding]; other site 994484017404 GTP/Mg2+ binding site [chemical binding]; other site 994484017405 Switch I region; other site 994484017406 G2 box; other site 994484017407 G3 box; other site 994484017408 Switch II region; other site 994484017409 G4 box; other site 994484017410 G5 box; other site 994484017411 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 994484017412 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 994484017413 Antibiotic Binding Site [chemical binding]; other site 994484017414 elongation factor G; Reviewed; Region: PRK00007 994484017415 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 994484017416 G1 box; other site 994484017417 putative GEF interaction site [polypeptide binding]; other site 994484017418 GTP/Mg2+ binding site [chemical binding]; other site 994484017419 Switch I region; other site 994484017420 G2 box; other site 994484017421 G3 box; other site 994484017422 Switch II region; other site 994484017423 G4 box; other site 994484017424 G5 box; other site 994484017425 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 994484017426 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 994484017427 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 994484017428 30S ribosomal protein S7; Validated; Region: PRK05302 994484017429 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 994484017430 S17 interaction site [polypeptide binding]; other site 994484017431 S8 interaction site; other site 994484017432 16S rRNA interaction site [nucleotide binding]; other site 994484017433 streptomycin interaction site [chemical binding]; other site 994484017434 23S rRNA interaction site [nucleotide binding]; other site 994484017435 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 994484017436 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 994484017437 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 994484017438 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 994484017439 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 994484017440 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 994484017441 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 994484017442 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 994484017443 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 994484017444 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 994484017445 DNA binding site [nucleotide binding] 994484017446 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 994484017447 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 994484017448 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 994484017449 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 994484017450 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 994484017451 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 994484017452 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 994484017453 RPB3 interaction site [polypeptide binding]; other site 994484017454 RPB1 interaction site [polypeptide binding]; other site 994484017455 RPB11 interaction site [polypeptide binding]; other site 994484017456 RPB10 interaction site [polypeptide binding]; other site 994484017457 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 994484017458 peripheral dimer interface [polypeptide binding]; other site 994484017459 core dimer interface [polypeptide binding]; other site 994484017460 L10 interface [polypeptide binding]; other site 994484017461 L11 interface [polypeptide binding]; other site 994484017462 putative EF-Tu interaction site [polypeptide binding]; other site 994484017463 putative EF-G interaction site [polypeptide binding]; other site 994484017464 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 994484017465 23S rRNA interface [nucleotide binding]; other site 994484017466 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 994484017467 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 994484017468 mRNA/rRNA interface [nucleotide binding]; other site 994484017469 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 994484017470 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 994484017471 23S rRNA interface [nucleotide binding]; other site 994484017472 L7/L12 interface [polypeptide binding]; other site 994484017473 putative thiostrepton binding site; other site 994484017474 L25 interface [polypeptide binding]; other site 994484017475 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 994484017476 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 994484017477 putative homodimer interface [polypeptide binding]; other site 994484017478 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 994484017479 heterodimer interface [polypeptide binding]; other site 994484017480 homodimer interface [polypeptide binding]; other site 994484017481 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 994484017482 elongation factor Tu; Reviewed; Region: PRK00049 994484017483 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 994484017484 G1 box; other site 994484017485 GEF interaction site [polypeptide binding]; other site 994484017486 GTP/Mg2+ binding site [chemical binding]; other site 994484017487 Switch I region; other site 994484017488 G2 box; other site 994484017489 G3 box; other site 994484017490 Switch II region; other site 994484017491 G4 box; other site 994484017492 G5 box; other site 994484017493 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 994484017494 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 994484017495 Antibiotic Binding Site [chemical binding]; other site 994484017496 pantothenate kinase; Reviewed; Region: PRK13322 994484017497 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 994484017498 Biotin operon repressor [Transcription]; Region: BirA; COG1654 994484017499 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 994484017500 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 994484017501 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 994484017502 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 994484017503 active site 994484017504 HIGH motif; other site 994484017505 dimer interface [polypeptide binding]; other site 994484017506 KMSKS motif; other site 994484017507 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 994484017508 putative peptidase; Provisional; Region: PRK11649 994484017509 Peptidase family M23; Region: Peptidase_M23; pfam01551 994484017510 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 994484017511 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 994484017512 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 994484017513 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 994484017514 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 994484017515 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 994484017516 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 994484017517 FMN binding site [chemical binding]; other site 994484017518 substrate binding site [chemical binding]; other site 994484017519 putative catalytic residue [active] 994484017520 Protein of unknown function (DUF805); Region: DUF805; pfam05656 994484017521 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 994484017522 classical (c) SDRs; Region: SDR_c; cd05233 994484017523 NAD(P) binding site [chemical binding]; other site 994484017524 active site 994484017525 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 994484017526 nucleotide binding site/active site [active] 994484017527 HIT family signature motif; other site 994484017528 catalytic residue [active] 994484017529 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 994484017530 diiron binding motif [ion binding]; other site 994484017531 OsmC-like protein; Region: OsmC; cl00767 994484017532 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 994484017533 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 994484017534 ligand binding site [chemical binding]; other site 994484017535 flexible hinge region; other site 994484017536 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 994484017537 putative switch regulator; other site 994484017538 non-specific DNA interactions [nucleotide binding]; other site 994484017539 DNA binding site [nucleotide binding] 994484017540 sequence specific DNA binding site [nucleotide binding]; other site 994484017541 putative cAMP binding site [chemical binding]; other site 994484017542 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 994484017543 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 994484017544 active site 994484017545 ribulose/triose binding site [chemical binding]; other site 994484017546 phosphate binding site [ion binding]; other site 994484017547 substrate (anthranilate) binding pocket [chemical binding]; other site 994484017548 product (indole) binding pocket [chemical binding]; other site 994484017549 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 994484017550 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 994484017551 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 994484017552 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 994484017553 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 994484017554 glutamine binding [chemical binding]; other site 994484017555 catalytic triad [active] 994484017556 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 994484017557 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 994484017558 active site 994484017559 catalytic triad [active] 994484017560 oxyanion hole [active] 994484017561 Autotransporter beta-domain; Region: Autotransporter; pfam03797 994484017562 anthranilate synthase component I; Provisional; Region: PRK13565 994484017563 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 994484017564 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 994484017565 phosphoglycolate phosphatase; Provisional; Region: PRK13223 994484017566 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 994484017567 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 994484017568 motif II; other site 994484017569 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 994484017570 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 994484017571 substrate binding site [chemical binding]; other site 994484017572 hexamer interface [polypeptide binding]; other site 994484017573 metal binding site [ion binding]; metal-binding site 994484017574 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 994484017575 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 994484017576 active site 994484017577 NAD binding site [chemical binding]; other site 994484017578 metal binding site [ion binding]; metal-binding site 994484017579 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484017580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484017581 dimer interface [polypeptide binding]; other site 994484017582 conserved gate region; other site 994484017583 putative PBP binding loops; other site 994484017584 ABC-ATPase subunit interface; other site 994484017585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484017586 dimer interface [polypeptide binding]; other site 994484017587 conserved gate region; other site 994484017588 putative PBP binding loops; other site 994484017589 ABC-ATPase subunit interface; other site 994484017590 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 994484017591 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484017592 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 994484017593 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 994484017594 Walker A/P-loop; other site 994484017595 ATP binding site [chemical binding]; other site 994484017596 Q-loop/lid; other site 994484017597 ABC transporter signature motif; other site 994484017598 Walker B; other site 994484017599 D-loop; other site 994484017600 H-loop/switch region; other site 994484017601 TOBE domain; Region: TOBE_2; pfam08402 994484017602 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 994484017603 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 994484017604 active site 994484017605 phosphorylation site [posttranslational modification] 994484017606 intermolecular recognition site; other site 994484017607 dimerization interface [polypeptide binding]; other site 994484017608 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 994484017609 DNA binding residues [nucleotide binding] 994484017610 dimerization interface [polypeptide binding]; other site 994484017611 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484017612 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484017613 substrate binding pocket [chemical binding]; other site 994484017614 membrane-bound complex binding site; other site 994484017615 hinge residues; other site 994484017616 PAS domain; Region: PAS_9; pfam13426 994484017617 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 994484017618 putative active site [active] 994484017619 heme pocket [chemical binding]; other site 994484017620 PAS fold; Region: PAS_3; pfam08447 994484017621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 994484017622 Histidine kinase; Region: HisKA_3; pfam07730 994484017623 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 994484017624 ATP binding site [chemical binding]; other site 994484017625 Mg2+ binding site [ion binding]; other site 994484017626 G-X-G motif; other site 994484017627 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 994484017628 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484017629 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 994484017630 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 994484017631 putative metal binding site [ion binding]; other site 994484017632 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 994484017633 HSP70 interaction site [polypeptide binding]; other site 994484017634 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 994484017635 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 994484017636 Substrate binding site; other site 994484017637 metal-binding site 994484017638 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 994484017639 Phosphotransferase enzyme family; Region: APH; pfam01636 994484017640 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 994484017641 OstA-like protein; Region: OstA; cl00844 994484017642 Organic solvent tolerance protein; Region: OstA_C; pfam04453 994484017643 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 994484017644 SurA N-terminal domain; Region: SurA_N; pfam09312 994484017645 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 994484017646 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 994484017647 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 994484017648 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 994484017649 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 994484017650 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 994484017651 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 994484017652 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 994484017653 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 994484017654 active site 994484017655 metal binding site [ion binding]; metal-binding site 994484017656 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 994484017657 active site residue [active] 994484017658 PrkA family serine protein kinase; Provisional; Region: PRK15455 994484017659 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 994484017660 hypothetical protein; Provisional; Region: PRK05325 994484017661 SpoVR family protein; Provisional; Region: PRK11767 994484017662 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 994484017663 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 994484017664 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 994484017665 active site 994484017666 NTP binding site [chemical binding]; other site 994484017667 metal binding triad [ion binding]; metal-binding site 994484017668 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 994484017669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484017670 Zn2+ binding site [ion binding]; other site 994484017671 Mg2+ binding site [ion binding]; other site 994484017672 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 994484017673 catalytic center binding site [active] 994484017674 ATP binding site [chemical binding]; other site 994484017675 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 994484017676 homooctamer interface [polypeptide binding]; other site 994484017677 active site 994484017678 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 994484017679 UGMP family protein; Validated; Region: PRK09604 994484017680 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 994484017681 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 994484017682 DNA primase, catalytic core; Region: dnaG; TIGR01391 994484017683 CHC2 zinc finger; Region: zf-CHC2; pfam01807 994484017684 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 994484017685 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 994484017686 active site 994484017687 metal binding site [ion binding]; metal-binding site 994484017688 interdomain interaction site; other site 994484017689 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 994484017690 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 994484017691 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 994484017692 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 994484017693 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 994484017694 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 994484017695 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484017696 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 994484017697 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484017698 DNA binding residues [nucleotide binding] 994484017699 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484017700 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484017701 substrate binding pocket [chemical binding]; other site 994484017702 membrane-bound complex binding site; other site 994484017703 hinge residues; other site 994484017704 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 994484017705 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 994484017706 putative active site [active] 994484017707 heme pocket [chemical binding]; other site 994484017708 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 994484017709 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 994484017710 putative active site [active] 994484017711 heme pocket [chemical binding]; other site 994484017712 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 994484017713 putative active site [active] 994484017714 heme pocket [chemical binding]; other site 994484017715 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 994484017716 putative active site [active] 994484017717 heme pocket [chemical binding]; other site 994484017718 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484017719 metal binding site [ion binding]; metal-binding site 994484017720 active site 994484017721 I-site; other site 994484017722 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 994484017723 integrase; Provisional; Region: int; PHA02601 994484017724 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 994484017725 active site 994484017726 DNA binding site [nucleotide binding] 994484017727 Int/Topo IB signature motif; other site 994484017728 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 994484017729 non-specific DNA interactions [nucleotide binding]; other site 994484017730 DNA binding site [nucleotide binding] 994484017731 sequence specific DNA binding site [nucleotide binding]; other site 994484017732 putative cAMP binding site [chemical binding]; other site 994484017733 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 994484017734 Type IV secretion system proteins; Region: T4SS; pfam07996 994484017735 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 994484017736 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 994484017737 FIC domain binding interface [polypeptide binding]; other site 994484017738 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 994484017739 ATP binding site [chemical binding]; other site 994484017740 putative Mg++ binding site [ion binding]; other site 994484017741 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 994484017742 nucleotide binding region [chemical binding]; other site 994484017743 ATP-binding site [chemical binding]; other site 994484017744 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 994484017745 Protein of unknown function DUF262; Region: DUF262; pfam03235 994484017746 Uncharacterized conserved protein [Function unknown]; Region: COG1479 994484017747 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 994484017748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484017749 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 994484017750 dimerization interface [polypeptide binding]; other site 994484017751 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 994484017752 heterodimer interface [polypeptide binding]; other site 994484017753 multimer interface [polypeptide binding]; other site 994484017754 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 994484017755 active site 994484017756 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 994484017757 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 994484017758 heterodimer interface [polypeptide binding]; other site 994484017759 active site 994484017760 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484017761 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 994484017762 putative DNA binding site [nucleotide binding]; other site 994484017763 putative Zn2+ binding site [ion binding]; other site 994484017764 AsnC family; Region: AsnC_trans_reg; pfam01037 994484017765 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 994484017766 Predicted amidohydrolase [General function prediction only]; Region: COG0388 994484017767 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 994484017768 putative active site [active] 994484017769 catalytic triad [active] 994484017770 putative dimer interface [polypeptide binding]; other site 994484017771 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 994484017772 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 994484017773 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484017774 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 994484017775 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 994484017776 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 994484017777 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 994484017778 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 994484017779 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 994484017780 FeS/SAM binding site; other site 994484017781 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 994484017782 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 994484017783 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 994484017784 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 994484017785 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484017786 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484017787 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484017788 active site 994484017789 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484017790 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484017791 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484017792 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 994484017793 FAD binding site [chemical binding]; other site 994484017794 substrate binding site [chemical binding]; other site 994484017795 catalytic residues [active] 994484017796 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484017797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484017798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484017799 metal binding site [ion binding]; metal-binding site 994484017800 active site 994484017801 I-site; other site 994484017802 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 994484017803 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 994484017804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 994484017805 active site 994484017806 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 994484017807 AAA domain; Region: AAA_26; pfam13500 994484017808 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 994484017809 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 994484017810 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 994484017811 S-adenosylmethionine binding site [chemical binding]; other site 994484017812 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 994484017813 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 994484017814 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 994484017815 substrate-cofactor binding pocket; other site 994484017816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484017817 catalytic residue [active] 994484017818 biotin synthase; Provisional; Region: PRK15108 994484017819 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 994484017820 FeS/SAM binding site; other site 994484017821 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 994484017822 comF family protein; Region: comF; TIGR00201 994484017823 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 994484017824 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 994484017825 TOBE domain; Region: TOBE; cl01440 994484017826 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 994484017827 serine/threonine protein kinase; Provisional; Region: PRK11768 994484017828 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 994484017829 Predicted permeases [General function prediction only]; Region: RarD; COG2962 994484017830 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 994484017831 ACT domain; Region: ACT_6; pfam13740 994484017832 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 994484017833 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 994484017834 active site 994484017835 Response regulator receiver domain; Region: Response_reg; pfam00072 994484017836 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 994484017837 active site 994484017838 phosphorylation site [posttranslational modification] 994484017839 intermolecular recognition site; other site 994484017840 dimerization interface [polypeptide binding]; other site 994484017841 potential frameshift: common BLAST hit: gi|77461406|ref|YP_350913.1| cyclic nucleotide-binding (cNMP-bd) protein 994484017842 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 994484017843 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 994484017844 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 994484017845 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 994484017846 FOG: CBS domain [General function prediction only]; Region: COG0517 994484017847 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 994484017848 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 994484017849 metal binding triad; other site 994484017850 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 994484017851 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 994484017852 active site 994484017853 catalytic site [active] 994484017854 substrate binding site [chemical binding]; other site 994484017855 RNA polymerase sigma factor; Reviewed; Region: PRK12523 994484017856 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484017857 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484017858 DNA binding residues [nucleotide binding] 994484017859 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 994484017860 FecR protein; Region: FecR; pfam04773 994484017861 Secretin and TonB N terminus short domain; Region: STN; smart00965 994484017862 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 994484017863 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 994484017864 N-terminal plug; other site 994484017865 ligand-binding site [chemical binding]; other site 994484017866 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 994484017867 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 994484017868 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 994484017869 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484017870 D-galactonate transporter; Region: 2A0114; TIGR00893 994484017871 putative substrate translocation pore; other site 994484017872 putative glutathione S-transferase; Provisional; Region: PRK10357 994484017873 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 994484017874 putative C-terminal domain interface [polypeptide binding]; other site 994484017875 putative GSH binding site (G-site) [chemical binding]; other site 994484017876 putative dimer interface [polypeptide binding]; other site 994484017877 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 994484017878 dimer interface [polypeptide binding]; other site 994484017879 N-terminal domain interface [polypeptide binding]; other site 994484017880 putative substrate binding pocket (H-site) [chemical binding]; other site 994484017881 inner membrane protein; Provisional; Region: PRK11715 994484017882 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 994484017883 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 994484017884 sensory histidine kinase CreC; Provisional; Region: PRK11100 994484017885 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 994484017886 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 994484017887 dimer interface [polypeptide binding]; other site 994484017888 phosphorylation site [posttranslational modification] 994484017889 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 994484017890 ATP binding site [chemical binding]; other site 994484017891 Mg2+ binding site [ion binding]; other site 994484017892 G-X-G motif; other site 994484017893 DNA-binding response regulator CreB; Provisional; Region: PRK11083 994484017894 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 994484017895 active site 994484017896 phosphorylation site [posttranslational modification] 994484017897 intermolecular recognition site; other site 994484017898 dimerization interface [polypeptide binding]; other site 994484017899 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 994484017900 DNA binding site [nucleotide binding] 994484017901 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 994484017902 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 994484017903 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 994484017904 putative acyl-acceptor binding pocket; other site 994484017905 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 994484017906 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 994484017907 DNA-binding site [nucleotide binding]; DNA binding site 994484017908 RNA-binding motif; other site 994484017909 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 994484017910 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 994484017911 NAD binding site [chemical binding]; other site 994484017912 catalytic Zn binding site [ion binding]; other site 994484017913 structural Zn binding site [ion binding]; other site 994484017914 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 994484017915 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 994484017916 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 994484017917 putative active site [active] 994484017918 putative substrate binding site [chemical binding]; other site 994484017919 putative cosubstrate binding site; other site 994484017920 catalytic site [active] 994484017921 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 994484017922 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 994484017923 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 994484017924 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484017925 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 994484017926 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 994484017927 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484017928 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 994484017929 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 994484017930 dimer interface [polypeptide binding]; other site 994484017931 active site 994484017932 glycine-pyridoxal phosphate binding site [chemical binding]; other site 994484017933 folate binding site [chemical binding]; other site 994484017934 TraX protein; Region: TraX; pfam05857 994484017935 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 994484017936 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 994484017937 tetramer interface [polypeptide binding]; other site 994484017938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484017939 catalytic residue [active] 994484017940 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 994484017941 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 994484017942 FAD binding pocket [chemical binding]; other site 994484017943 FAD binding motif [chemical binding]; other site 994484017944 phosphate binding motif [ion binding]; other site 994484017945 beta-alpha-beta structure motif; other site 994484017946 NAD binding pocket [chemical binding]; other site 994484017947 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 994484017948 catalytic loop [active] 994484017949 iron binding site [ion binding]; other site 994484017950 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 994484017951 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 994484017952 [2Fe-2S] cluster binding site [ion binding]; other site 994484017953 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 994484017954 putative alpha subunit interface [polypeptide binding]; other site 994484017955 putative active site [active] 994484017956 putative substrate binding site [chemical binding]; other site 994484017957 Fe binding site [ion binding]; other site 994484017958 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 994484017959 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484017960 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484017961 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 994484017962 Ligand Binding Site [chemical binding]; other site 994484017963 Electron transfer flavoprotein domain; Region: ETF; pfam01012 994484017964 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 994484017965 Ligand binding site [chemical binding]; other site 994484017966 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 994484017967 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 994484017968 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 994484017969 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 994484017970 Cysteine-rich domain; Region: CCG; pfam02754 994484017971 Cysteine-rich domain; Region: CCG; pfam02754 994484017972 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 994484017973 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 994484017974 putative active site [active] 994484017975 putative FMN binding site [chemical binding]; other site 994484017976 putative substrate binding site [chemical binding]; other site 994484017977 putative catalytic residue [active] 994484017978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484017979 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 994484017980 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 994484017981 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 994484017982 active site 994484017983 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 994484017984 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 994484017985 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 994484017986 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 994484017987 non-specific DNA binding site [nucleotide binding]; other site 994484017988 salt bridge; other site 994484017989 sequence-specific DNA binding site [nucleotide binding]; other site 994484017990 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 994484017991 Archaeal ATPase; Region: Arch_ATPase; pfam01637 994484017992 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484017993 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484017994 conserved cys residue [active] 994484017995 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484017996 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484017997 Uncharacterized conserved protein [Function unknown]; Region: COG3246 994484017998 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 994484017999 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484018000 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 994484018001 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 994484018002 active site 994484018003 Protein of unknown function (DUF971); Region: DUF971; cl01414 994484018004 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 994484018005 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 994484018006 substrate binding pocket [chemical binding]; other site 994484018007 active site 994484018008 iron coordination sites [ion binding]; other site 994484018009 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 994484018010 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 994484018011 conserved cys residue [active] 994484018012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484018013 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 994484018014 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 994484018015 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 994484018016 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 994484018017 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 994484018018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018019 dimer interface [polypeptide binding]; other site 994484018020 conserved gate region; other site 994484018021 putative PBP binding loops; other site 994484018022 ABC-ATPase subunit interface; other site 994484018023 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 994484018024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484018025 Walker A/P-loop; other site 994484018026 ATP binding site [chemical binding]; other site 994484018027 Q-loop/lid; other site 994484018028 ABC transporter signature motif; other site 994484018029 Walker B; other site 994484018030 D-loop; other site 994484018031 H-loop/switch region; other site 994484018032 transcriptional regulator BetI; Validated; Region: PRK00767 994484018033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484018034 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 994484018035 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 994484018036 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 994484018037 tetrameric interface [polypeptide binding]; other site 994484018038 NAD binding site [chemical binding]; other site 994484018039 catalytic residues [active] 994484018040 choline dehydrogenase; Validated; Region: PRK02106 994484018041 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484018042 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 994484018043 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 994484018044 putative transporter; Provisional; Region: PRK10504 994484018045 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484018046 putative substrate translocation pore; other site 994484018047 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 994484018048 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 994484018049 ATP binding site [chemical binding]; other site 994484018050 Mg++ binding site [ion binding]; other site 994484018051 motif III; other site 994484018052 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 994484018053 nucleotide binding region [chemical binding]; other site 994484018054 ATP-binding site [chemical binding]; other site 994484018055 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 994484018056 putative RNA binding site [nucleotide binding]; other site 994484018057 HI0933-like protein; Region: HI0933_like; pfam03486 994484018058 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 994484018059 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 994484018060 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 994484018061 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484018062 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484018063 substrate binding pocket [chemical binding]; other site 994484018064 membrane-bound complex binding site; other site 994484018065 hinge residues; other site 994484018066 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 994484018067 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484018068 Coenzyme A binding pocket [chemical binding]; other site 994484018069 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 994484018070 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 994484018071 Response regulator receiver domain; Region: Response_reg; pfam00072 994484018072 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 994484018073 active site 994484018074 phosphorylation site [posttranslational modification] 994484018075 intermolecular recognition site; other site 994484018076 dimerization interface [polypeptide binding]; other site 994484018077 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 994484018078 PAS domain; Region: PAS_9; pfam13426 994484018079 putative active site [active] 994484018080 heme pocket [chemical binding]; other site 994484018081 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484018082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484018083 metal binding site [ion binding]; metal-binding site 994484018084 active site 994484018085 I-site; other site 994484018086 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 994484018087 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484018088 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484018089 Alginate lyase; Region: Alginate_lyase2; pfam08787 994484018090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484018091 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484018092 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484018093 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 994484018094 intersubunit interface [polypeptide binding]; other site 994484018095 active site 994484018096 zinc binding site [ion binding]; other site 994484018097 Na+ binding site [ion binding]; other site 994484018098 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 994484018099 murein hydrolase B; Provisional; Region: PRK10760; cl17906 994484018100 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 994484018101 Phosphoglycerate kinase; Region: PGK; pfam00162 994484018102 substrate binding site [chemical binding]; other site 994484018103 hinge regions; other site 994484018104 ADP binding site [chemical binding]; other site 994484018105 catalytic site [active] 994484018106 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 994484018107 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 994484018108 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484018109 transketolase; Reviewed; Region: PRK12753 994484018110 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 994484018111 TPP-binding site [chemical binding]; other site 994484018112 dimer interface [polypeptide binding]; other site 994484018113 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 994484018114 PYR/PP interface [polypeptide binding]; other site 994484018115 dimer interface [polypeptide binding]; other site 994484018116 TPP binding site [chemical binding]; other site 994484018117 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 994484018118 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 994484018119 putative DNA binding site [nucleotide binding]; other site 994484018120 putative Zn2+ binding site [ion binding]; other site 994484018121 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484018122 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 994484018123 S-adenosylmethionine binding site [chemical binding]; other site 994484018124 S-adenosylmethionine synthetase; Validated; Region: PRK05250 994484018125 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 994484018126 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 994484018127 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 994484018128 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 994484018129 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 994484018130 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 994484018131 nucleotide binding pocket [chemical binding]; other site 994484018132 K-X-D-G motif; other site 994484018133 catalytic site [active] 994484018134 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 994484018135 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 994484018136 Cytochrome C' Region: Cytochrom_C_2; pfam01322 994484018137 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 994484018138 MltA specific insert domain; Region: MltA; smart00925 994484018139 3D domain; Region: 3D; pfam06725 994484018140 Predicted membrane protein [Function unknown]; Region: COG3686 994484018141 EamA-like transporter family; Region: EamA; pfam00892 994484018142 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 994484018143 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484018144 putative substrate translocation pore; other site 994484018145 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 994484018146 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 994484018147 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 994484018148 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 994484018149 homotetramer interface [polypeptide binding]; other site 994484018150 ligand binding site [chemical binding]; other site 994484018151 catalytic site [active] 994484018152 NAD binding site [chemical binding]; other site 994484018153 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 994484018154 FAD binding site [chemical binding]; other site 994484018155 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484018156 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484018157 substrate binding pocket [chemical binding]; other site 994484018158 membrane-bound complex binding site; other site 994484018159 hinge residues; other site 994484018160 helicase 45; Provisional; Region: PTZ00424 994484018161 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 994484018162 ATP binding site [chemical binding]; other site 994484018163 Mg++ binding site [ion binding]; other site 994484018164 motif III; other site 994484018165 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 994484018166 nucleotide binding region [chemical binding]; other site 994484018167 ATP-binding site [chemical binding]; other site 994484018168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 994484018169 Transposase; Region: DEDD_Tnp_IS110; pfam01548 994484018170 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 994484018171 hypothetical protein; Provisional; Region: PRK03757 994484018172 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 994484018173 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 994484018174 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484018175 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 994484018176 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 994484018177 inhibitor-cofactor binding pocket; inhibition site 994484018178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484018179 catalytic residue [active] 994484018180 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 994484018181 RNA methyltransferase, RsmE family; Region: TIGR00046 994484018182 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 994484018183 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484018184 substrate binding pocket [chemical binding]; other site 994484018185 membrane-bound complex binding site; other site 994484018186 hinge residues; other site 994484018187 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 994484018188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484018189 hydroxyglutarate oxidase; Provisional; Region: PRK11728 994484018190 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 994484018191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484018192 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 994484018193 dimerization interface [polypeptide binding]; other site 994484018194 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 994484018195 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 994484018196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484018197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484018198 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 994484018199 putative dimerization interface [polypeptide binding]; other site 994484018200 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 994484018201 Malonate transporter MadL subunit; Region: MadL; cl04273 994484018202 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 994484018203 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 994484018204 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 994484018205 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 994484018206 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 994484018207 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 994484018208 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 994484018209 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 994484018210 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 994484018211 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 994484018212 Hpt domain; Region: Hpt; pfam01627 994484018213 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 994484018214 putative binding surface; other site 994484018215 active site 994484018216 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 994484018217 putative binding surface; other site 994484018218 active site 994484018219 Hpt domain; Region: Hpt; pfam01627 994484018220 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 994484018221 putative binding surface; other site 994484018222 active site 994484018223 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 994484018224 putative binding surface; other site 994484018225 active site 994484018226 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 994484018227 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 994484018228 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 994484018229 ATP binding site [chemical binding]; other site 994484018230 Mg2+ binding site [ion binding]; other site 994484018231 G-X-G motif; other site 994484018232 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 994484018233 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 994484018234 Response regulator receiver domain; Region: Response_reg; pfam00072 994484018235 active site 994484018236 phosphorylation site [posttranslational modification] 994484018237 intermolecular recognition site; other site 994484018238 dimerization interface [polypeptide binding]; other site 994484018239 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 994484018240 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484018241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484018242 dimer interface [polypeptide binding]; other site 994484018243 putative CheW interface [polypeptide binding]; other site 994484018244 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 994484018245 Response regulator receiver domain; Region: Response_reg; pfam00072 994484018246 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 994484018247 active site 994484018248 phosphorylation site [posttranslational modification] 994484018249 intermolecular recognition site; other site 994484018250 dimerization interface [polypeptide binding]; other site 994484018251 Response regulator receiver domain; Region: Response_reg; pfam00072 994484018252 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 994484018253 active site 994484018254 phosphorylation site [posttranslational modification] 994484018255 intermolecular recognition site; other site 994484018256 dimerization interface [polypeptide binding]; other site 994484018257 glutathione synthetase; Provisional; Region: PRK05246 994484018258 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 994484018259 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 994484018260 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 994484018261 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 994484018262 hypothetical protein; Validated; Region: PRK00228 994484018263 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 994484018264 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 994484018265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484018266 active site 994484018267 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 994484018268 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 994484018269 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 994484018270 dihydroorotase; Validated; Region: pyrC; PRK09357 994484018271 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 994484018272 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 994484018273 active site 994484018274 TM2 domain; Region: TM2; cl00984 994484018275 TM2 domain; Region: TM2; cl00984 994484018276 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 994484018277 NlpC/P60 family; Region: NLPC_P60; pfam00877 994484018278 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 994484018279 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 994484018280 Walker A motif; other site 994484018281 ATP binding site [chemical binding]; other site 994484018282 Walker B motif; other site 994484018283 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 994484018284 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484018285 catalytic residue [active] 994484018286 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 994484018287 pyrroline-5-carboxylate reductase; Region: PLN02688 994484018288 YGGT family; Region: YGGT; pfam02325 994484018289 YGGT family; Region: YGGT; pfam02325 994484018290 hypothetical protein; Validated; Region: PRK05090 994484018291 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 994484018292 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 994484018293 Methyltransferase domain; Region: Methyltransf_31; pfam13847 994484018294 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 994484018295 S-adenosylmethionine binding site [chemical binding]; other site 994484018296 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 994484018297 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 994484018298 active site 994484018299 dimerization interface [polypeptide binding]; other site 994484018300 HemN family oxidoreductase; Provisional; Region: PRK05660 994484018301 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 994484018302 FeS/SAM binding site; other site 994484018303 HemN C-terminal domain; Region: HemN_C; pfam06969 994484018304 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 994484018305 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 994484018306 S-adenosylmethionine binding site [chemical binding]; other site 994484018307 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 994484018308 ThiS interaction site; other site 994484018309 putative active site [active] 994484018310 tetramer interface [polypeptide binding]; other site 994484018311 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 994484018312 thiS-thiF/thiG interaction site; other site 994484018313 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 994484018314 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 994484018315 Transglycosylase; Region: Transgly; cl17702 994484018316 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 994484018317 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 994484018318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484018319 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484018320 DNA binding residues [nucleotide binding] 994484018321 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 994484018322 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 994484018323 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 994484018324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484018325 Walker A/P-loop; other site 994484018326 ATP binding site [chemical binding]; other site 994484018327 Q-loop/lid; other site 994484018328 ABC transporter signature motif; other site 994484018329 Walker B; other site 994484018330 D-loop; other site 994484018331 H-loop/switch region; other site 994484018332 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 994484018333 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 994484018334 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 994484018335 P loop; other site 994484018336 GTP binding site [chemical binding]; other site 994484018337 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 994484018338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 994484018339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484018340 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 994484018341 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 994484018342 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 994484018343 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 994484018344 S-adenosylmethionine binding site [chemical binding]; other site 994484018345 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 994484018346 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 994484018347 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 994484018348 active site residue [active] 994484018349 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 994484018350 active site residue [active] 994484018351 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484018352 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484018353 Bacterial transcriptional repressor; Region: TetR; pfam13972 994484018354 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 994484018355 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 994484018356 NAD(P) binding site [chemical binding]; other site 994484018357 catalytic residues [active] 994484018358 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 994484018359 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 994484018360 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 994484018361 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 994484018362 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 994484018363 active site 994484018364 (T/H)XGH motif; other site 994484018365 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 994484018366 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 994484018367 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 994484018368 DNA binding site [nucleotide binding] 994484018369 catalytic residue [active] 994484018370 H2TH interface [polypeptide binding]; other site 994484018371 putative catalytic residues [active] 994484018372 turnover-facilitating residue; other site 994484018373 intercalation triad [nucleotide binding]; other site 994484018374 8OG recognition residue [nucleotide binding]; other site 994484018375 putative reading head residues; other site 994484018376 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 994484018377 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 994484018378 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484018379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484018380 Zn2+ binding site [ion binding]; other site 994484018381 Mg2+ binding site [ion binding]; other site 994484018382 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 994484018383 intracellular protease, PfpI family; Region: PfpI; TIGR01382 994484018384 proposed catalytic triad [active] 994484018385 conserved cys residue [active] 994484018386 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 994484018387 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 994484018388 putative RNA binding site [nucleotide binding]; other site 994484018389 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 994484018390 S-adenosylmethionine binding site [chemical binding]; other site 994484018391 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 994484018392 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484018393 putative substrate translocation pore; other site 994484018394 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 994484018395 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 994484018396 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 994484018397 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 994484018398 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 994484018399 folate binding site [chemical binding]; other site 994484018400 NADP+ binding site [chemical binding]; other site 994484018401 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 994484018402 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 994484018403 G1 box; other site 994484018404 GTP/Mg2+ binding site [chemical binding]; other site 994484018405 G2 box; other site 994484018406 Switch I region; other site 994484018407 G3 box; other site 994484018408 Switch II region; other site 994484018409 G4 box; other site 994484018410 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 994484018411 Uncharacterized conserved protein [Function unknown]; Region: COG1683 994484018412 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 994484018413 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 994484018414 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 994484018415 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 994484018416 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 994484018417 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484018418 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 994484018419 Walker A motif; other site 994484018420 ATP binding site [chemical binding]; other site 994484018421 Walker B motif; other site 994484018422 arginine finger; other site 994484018423 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 994484018424 HrpZ; Region: Hairpins; pfam04877 994484018425 Type III secretion needle MxiH like; Region: MxiH; cl09641 994484018426 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 994484018427 HrpE/YscL/FliH and V-type ATPase subunit E; Region: HrpE; pfam06188 994484018428 Flagellar assembly protein FliH; Region: FliH; pfam02108 994484018429 HrpF protein; Region: HrpF; pfam06266 994484018430 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 994484018431 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484018432 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 994484018433 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 994484018434 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 994484018435 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 994484018436 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 994484018437 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 994484018438 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 994484018439 type III secretion system protein YscR; Provisional; Region: PRK12797 994484018440 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 994484018441 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 994484018442 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 994484018443 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484018444 Walker A motif; other site 994484018445 ATP binding site [chemical binding]; other site 994484018446 Walker B motif; other site 994484018447 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 994484018448 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 994484018449 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 994484018450 FHIPEP family; Region: FHIPEP; pfam00771 994484018451 HrpJ-like domain; Region: HrpJ; cl15454 994484018452 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 994484018453 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 994484018454 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 994484018455 DNA binding residues [nucleotide binding] 994484018456 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 994484018457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484018458 Coenzyme A binding pocket [chemical binding]; other site 994484018459 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 994484018460 Cytochrome P450; Region: p450; cl12078 994484018461 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 994484018462 Beta-lactamase; Region: Beta-lactamase; pfam00144 994484018463 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 994484018464 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 994484018465 N-acetyl-D-glucosamine binding site [chemical binding]; other site 994484018466 catalytic residue [active] 994484018467 Tir chaperone protein (CesT) family; Region: CesT; cl08444 994484018468 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 994484018469 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 994484018470 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 994484018471 active site 994484018472 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 994484018473 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484018474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018475 dimer interface [polypeptide binding]; other site 994484018476 conserved gate region; other site 994484018477 putative PBP binding loops; other site 994484018478 ABC-ATPase subunit interface; other site 994484018479 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 994484018480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018481 dimer interface [polypeptide binding]; other site 994484018482 conserved gate region; other site 994484018483 putative PBP binding loops; other site 994484018484 ABC-ATPase subunit interface; other site 994484018485 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 994484018486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484018487 Walker A/P-loop; other site 994484018488 ATP binding site [chemical binding]; other site 994484018489 Q-loop/lid; other site 994484018490 ABC transporter signature motif; other site 994484018491 Walker B; other site 994484018492 D-loop; other site 994484018493 H-loop/switch region; other site 994484018494 TOBE domain; Region: TOBE_2; pfam08402 994484018495 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 994484018496 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484018497 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 994484018498 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484018499 putative aminotransferase; Validated; Region: PRK07480 994484018500 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 994484018501 inhibitor-cofactor binding pocket; inhibition site 994484018502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484018503 catalytic residue [active] 994484018504 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484018505 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484018506 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 994484018507 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 994484018508 catalytic triad [active] 994484018509 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 994484018510 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 994484018511 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 994484018512 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 994484018513 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 994484018514 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 994484018515 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 994484018516 Walker A/P-loop; other site 994484018517 ATP binding site [chemical binding]; other site 994484018518 Q-loop/lid; other site 994484018519 ABC transporter signature motif; other site 994484018520 Walker B; other site 994484018521 D-loop; other site 994484018522 H-loop/switch region; other site 994484018523 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 994484018524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018525 dimer interface [polypeptide binding]; other site 994484018526 conserved gate region; other site 994484018527 putative PBP binding loops; other site 994484018528 ABC-ATPase subunit interface; other site 994484018529 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 994484018530 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 994484018531 active site 994484018532 dimer interface [polypeptide binding]; other site 994484018533 non-prolyl cis peptide bond; other site 994484018534 insertion regions; other site 994484018535 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 994484018536 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484018537 substrate binding pocket [chemical binding]; other site 994484018538 membrane-bound complex binding site; other site 994484018539 hinge residues; other site 994484018540 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 994484018541 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 994484018542 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 994484018543 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 994484018544 dimer interface [polypeptide binding]; other site 994484018545 decamer (pentamer of dimers) interface [polypeptide binding]; other site 994484018546 catalytic triad [active] 994484018547 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 994484018548 active site 994484018549 NTP binding site [chemical binding]; other site 994484018550 metal binding triad [ion binding]; metal-binding site 994484018551 antibiotic binding site [chemical binding]; other site 994484018552 outer membrane porin, OprD family; Region: OprD; pfam03573 994484018553 N-acetylglutamate synthase; Validated; Region: PRK05279 994484018554 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 994484018555 putative feedback inhibition sensing region; other site 994484018556 putative nucleotide binding site [chemical binding]; other site 994484018557 putative substrate binding site [chemical binding]; other site 994484018558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484018559 Coenzyme A binding pocket [chemical binding]; other site 994484018560 acetylornithine deacetylase; Provisional; Region: PRK05111 994484018561 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 994484018562 metal binding site [ion binding]; metal-binding site 994484018563 putative dimer interface [polypeptide binding]; other site 994484018564 Uncharacterized conserved protein [Function unknown]; Region: COG3025 994484018565 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 994484018566 putative active site [active] 994484018567 putative metal binding residues [ion binding]; other site 994484018568 signature motif; other site 994484018569 putative triphosphate binding site [ion binding]; other site 994484018570 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 994484018571 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 994484018572 putative DNA binding site [nucleotide binding]; other site 994484018573 putative Zn2+ binding site [ion binding]; other site 994484018574 AsnC family; Region: AsnC_trans_reg; pfam01037 994484018575 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 994484018576 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 994484018577 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 994484018578 Walker A motif; other site 994484018579 ATP binding site [chemical binding]; other site 994484018580 Walker B motif; other site 994484018581 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 994484018582 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 994484018583 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 994484018584 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 994484018585 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 994484018586 lipoyl attachment site [posttranslational modification]; other site 994484018587 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 994484018588 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 994484018589 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 994484018590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018591 dimer interface [polypeptide binding]; other site 994484018592 conserved gate region; other site 994484018593 putative PBP binding loops; other site 994484018594 ABC-ATPase subunit interface; other site 994484018595 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 994484018596 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 994484018597 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 994484018598 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 994484018599 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 994484018600 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 994484018601 proline aminopeptidase P II; Provisional; Region: PRK10879 994484018602 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 994484018603 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 994484018604 active site 994484018605 hypothetical protein; Reviewed; Region: PRK02166 994484018606 TIGR02449 family protein; Region: TIGR02449 994484018607 Cell division protein ZapA; Region: ZapA; pfam05164 994484018608 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 994484018609 EVE domain; Region: EVE; cl00728 994484018610 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 994484018611 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 994484018612 HlyD family secretion protein; Region: HlyD_3; pfam13437 994484018613 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 994484018614 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 994484018615 Walker A/P-loop; other site 994484018616 ATP binding site [chemical binding]; other site 994484018617 Q-loop/lid; other site 994484018618 ABC transporter signature motif; other site 994484018619 Walker B; other site 994484018620 D-loop; other site 994484018621 H-loop/switch region; other site 994484018622 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 994484018623 Walker A/P-loop; other site 994484018624 ATP binding site [chemical binding]; other site 994484018625 Q-loop/lid; other site 994484018626 ABC transporter signature motif; other site 994484018627 Walker B; other site 994484018628 D-loop; other site 994484018629 H-loop/switch region; other site 994484018630 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 994484018631 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 994484018632 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 994484018633 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 994484018634 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 994484018635 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 994484018636 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 994484018637 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 994484018638 NAD(P) binding site [chemical binding]; other site 994484018639 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 994484018640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484018641 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484018642 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 994484018643 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 994484018644 putative active site pocket [active] 994484018645 dimerization interface [polypeptide binding]; other site 994484018646 putative catalytic residue [active] 994484018647 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 994484018648 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 994484018649 catalytic loop [active] 994484018650 iron binding site [ion binding]; other site 994484018651 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 994484018652 FAD binding pocket [chemical binding]; other site 994484018653 FAD binding motif [chemical binding]; other site 994484018654 phosphate binding motif [ion binding]; other site 994484018655 beta-alpha-beta structure motif; other site 994484018656 NAD binding pocket [chemical binding]; other site 994484018657 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 994484018658 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 994484018659 transcription termination factor Rho; Provisional; Region: rho; PRK09376 994484018660 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 994484018661 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 994484018662 RNA binding site [nucleotide binding]; other site 994484018663 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 994484018664 multimer interface [polypeptide binding]; other site 994484018665 Walker A motif; other site 994484018666 ATP binding site [chemical binding]; other site 994484018667 Walker B motif; other site 994484018668 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 994484018669 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 994484018670 catalytic residues [active] 994484018671 Transcriptional regulators [Transcription]; Region: FadR; COG2186 994484018672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484018673 DNA-binding site [nucleotide binding]; DNA binding site 994484018674 FCD domain; Region: FCD; pfam07729 994484018675 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484018676 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484018677 substrate binding pocket [chemical binding]; other site 994484018678 membrane-bound complex binding site; other site 994484018679 hinge residues; other site 994484018680 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484018681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018682 dimer interface [polypeptide binding]; other site 994484018683 conserved gate region; other site 994484018684 putative PBP binding loops; other site 994484018685 ABC-ATPase subunit interface; other site 994484018686 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484018687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484018688 dimer interface [polypeptide binding]; other site 994484018689 conserved gate region; other site 994484018690 putative PBP binding loops; other site 994484018691 ABC-ATPase subunit interface; other site 994484018692 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 994484018693 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 994484018694 Walker A/P-loop; other site 994484018695 ATP binding site [chemical binding]; other site 994484018696 Q-loop/lid; other site 994484018697 ABC transporter signature motif; other site 994484018698 Walker B; other site 994484018699 D-loop; other site 994484018700 H-loop/switch region; other site 994484018701 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 994484018702 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 994484018703 polyphosphate kinase; Provisional; Region: PRK05443 994484018704 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 994484018705 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 994484018706 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 994484018707 putative active site [active] 994484018708 catalytic site [active] 994484018709 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 994484018710 putative domain interface [polypeptide binding]; other site 994484018711 putative active site [active] 994484018712 catalytic site [active] 994484018713 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 994484018714 dimer interface [polypeptide binding]; other site 994484018715 allosteric magnesium binding site [ion binding]; other site 994484018716 active site 994484018717 aspartate-rich active site metal binding site; other site 994484018718 Schiff base residues; other site 994484018719 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 994484018720 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 994484018721 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 994484018722 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 994484018723 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 994484018724 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 994484018725 conserved cys residue [active] 994484018726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 994484018727 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 994484018728 Cytochrome c; Region: Cytochrom_C; pfam00034 994484018729 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 994484018730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 994484018731 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 994484018732 putative dimer interface [polypeptide binding]; other site 994484018733 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 994484018734 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 994484018735 LysE type translocator; Region: LysE; cl00565 994484018736 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 994484018737 Mechanosensitive ion channel; Region: MS_channel; pfam00924 994484018738 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 994484018739 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484018740 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484018741 ABC transporter; Region: ABC_tran_2; pfam12848 994484018742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 994484018743 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 994484018744 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 994484018745 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 994484018746 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 994484018747 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 994484018748 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 994484018749 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 994484018750 HemY protein N-terminus; Region: HemY_N; pfam07219 994484018751 uroporphyrinogen-III synthase; Validated; Region: PRK05752 994484018752 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 994484018753 active site 994484018754 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 994484018755 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 994484018756 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 994484018757 domain interfaces; other site 994484018758 active site 994484018759 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 994484018760 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 994484018761 active site 994484018762 phosphorylation site [posttranslational modification] 994484018763 intermolecular recognition site; other site 994484018764 LytTr DNA-binding domain; Region: LytTR; pfam04397 994484018765 argininosuccinate lyase; Provisional; Region: PRK00855 994484018766 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 994484018767 active sites [active] 994484018768 tetramer interface [polypeptide binding]; other site 994484018769 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484018770 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 994484018771 C-terminal domain interface [polypeptide binding]; other site 994484018772 GSH binding site (G-site) [chemical binding]; other site 994484018773 dimer interface [polypeptide binding]; other site 994484018774 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 994484018775 putative N-terminal domain interface [polypeptide binding]; other site 994484018776 putative dimer interface [polypeptide binding]; other site 994484018777 putative substrate binding pocket (H-site) [chemical binding]; other site 994484018778 TIGR02647 family protein; Region: DNA 994484018779 adenylate cyclase; Provisional; Region: cyaA; PRK09450 994484018780 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 994484018781 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 994484018782 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 994484018783 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 994484018784 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 994484018785 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 994484018786 putative iron binding site [ion binding]; other site 994484018787 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 994484018788 diaminopimelate decarboxylase; Region: lysA; TIGR01048 994484018789 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 994484018790 active site 994484018791 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484018792 substrate binding site [chemical binding]; other site 994484018793 catalytic residues [active] 994484018794 dimer interface [polypeptide binding]; other site 994484018795 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 994484018796 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 994484018797 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 994484018798 Protein of unknown function, DUF484; Region: DUF484; cl17449 994484018799 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 994484018800 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 994484018801 active site 994484018802 DNA binding site [nucleotide binding] 994484018803 Int/Topo IB signature motif; other site 994484018804 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 994484018805 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 994484018806 motif II; other site 994484018807 Uncharacterized conserved protein [Function unknown]; Region: COG0432 994484018808 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 994484018809 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 994484018810 Nitrogen regulatory protein P-II; Region: P-II; smart00938 994484018811 Membrane fusogenic activity; Region: BMFP; pfam04380 994484018812 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 994484018813 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 994484018814 ATP binding site [chemical binding]; other site 994484018815 Mg2+ binding site [ion binding]; other site 994484018816 G-X-G motif; other site 994484018817 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 994484018818 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 994484018819 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 994484018820 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 994484018821 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 994484018822 active site 994484018823 catalytic residues [active] 994484018824 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484018825 dimerization interface [polypeptide binding]; other site 994484018826 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484018827 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484018828 dimer interface [polypeptide binding]; other site 994484018829 putative CheW interface [polypeptide binding]; other site 994484018830 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 994484018831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484018832 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 994484018833 dimerization interface [polypeptide binding]; other site 994484018834 substrate binding pocket [chemical binding]; other site 994484018835 multidrug efflux protein NorA; Provisional; Region: PRK00187 994484018836 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 994484018837 cation binding site [ion binding]; other site 994484018838 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484018839 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484018840 metal binding site [ion binding]; metal-binding site 994484018841 active site 994484018842 I-site; other site 994484018843 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 994484018844 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 994484018845 Family description; Region: UvrD_C_2; pfam13538 994484018846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484018847 active site 994484018848 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 994484018849 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 994484018850 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 994484018851 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 994484018852 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 994484018853 non-specific DNA binding site [nucleotide binding]; other site 994484018854 salt bridge; other site 994484018855 sequence-specific DNA binding site [nucleotide binding]; other site 994484018856 Cupin domain; Region: Cupin_2; pfam07883 994484018857 alanine racemase; Reviewed; Region: dadX; PRK03646 994484018858 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 994484018859 active site 994484018860 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 994484018861 substrate binding site [chemical binding]; other site 994484018862 catalytic residues [active] 994484018863 dimer interface [polypeptide binding]; other site 994484018864 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 994484018865 homotrimer interaction site [polypeptide binding]; other site 994484018866 putative active site [active] 994484018867 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 994484018868 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 994484018869 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 994484018870 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 994484018871 putative DNA binding site [nucleotide binding]; other site 994484018872 putative Zn2+ binding site [ion binding]; other site 994484018873 AsnC family; Region: AsnC_trans_reg; pfam01037 994484018874 Flagellin N-methylase; Region: FliB; pfam03692 994484018875 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 994484018876 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 994484018877 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 994484018878 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 994484018879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484018880 DNA-binding site [nucleotide binding]; DNA binding site 994484018881 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 994484018882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484018883 homodimer interface [polypeptide binding]; other site 994484018884 catalytic residue [active] 994484018885 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 994484018886 PLD-like domain; Region: PLDc_2; pfam13091 994484018887 putative active site [active] 994484018888 catalytic site [active] 994484018889 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 994484018890 PLD-like domain; Region: PLDc_2; pfam13091 994484018891 putative active site [active] 994484018892 catalytic site [active] 994484018893 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 994484018894 putative substrate translocation pore; other site 994484018895 Major Facilitator Superfamily; Region: MFS_1; pfam07690 994484018896 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 994484018897 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 994484018898 NAD(P) binding site [chemical binding]; other site 994484018899 catalytic residues [active] 994484018900 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 994484018901 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 994484018902 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 994484018903 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 994484018904 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 994484018905 peptide binding site [polypeptide binding]; other site 994484018906 hypothetical protein; Reviewed; Region: PRK00024 994484018907 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 994484018908 MPN+ (JAMM) motif; other site 994484018909 Zinc-binding site [ion binding]; other site 994484018910 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 994484018911 Flavoprotein; Region: Flavoprotein; pfam02441 994484018912 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 994484018913 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 994484018914 trimer interface [polypeptide binding]; other site 994484018915 active site 994484018916 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 994484018917 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 994484018918 active site 994484018919 substrate binding site [chemical binding]; other site 994484018920 metal binding site [ion binding]; metal-binding site 994484018921 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 994484018922 feedback inhibition sensing region; other site 994484018923 homohexameric interface [polypeptide binding]; other site 994484018924 nucleotide binding site [chemical binding]; other site 994484018925 N-acetyl-L-glutamate binding site [chemical binding]; other site 994484018926 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 994484018927 active site 994484018928 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 994484018929 putative active site [active] 994484018930 putative catalytic site [active] 994484018931 putative DNA binding site [nucleotide binding]; other site 994484018932 putative phosphate binding site [ion binding]; other site 994484018933 metal binding site A [ion binding]; metal-binding site 994484018934 putative AP binding site [nucleotide binding]; other site 994484018935 putative metal binding site B [ion binding]; other site 994484018936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 994484018937 ribonuclease PH; Reviewed; Region: rph; PRK00173 994484018938 Ribonuclease PH; Region: RNase_PH_bact; cd11362 994484018939 hexamer interface [polypeptide binding]; other site 994484018940 active site 994484018941 hypothetical protein; Provisional; Region: PRK11820 994484018942 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 994484018943 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 994484018944 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 994484018945 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 994484018946 catalytic site [active] 994484018947 G-X2-G-X-G-K; other site 994484018948 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 994484018949 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 994484018950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 994484018951 Zn2+ binding site [ion binding]; other site 994484018952 Mg2+ binding site [ion binding]; other site 994484018953 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 994484018954 synthetase active site [active] 994484018955 NTP binding site [chemical binding]; other site 994484018956 metal binding site [ion binding]; metal-binding site 994484018957 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 994484018958 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 994484018959 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 994484018960 homotrimer interaction site [polypeptide binding]; other site 994484018961 putative active site [active] 994484018962 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484018963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484018964 NAD(P) binding site [chemical binding]; other site 994484018965 active site 994484018966 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 994484018967 biopolymer transport protein ExbD; Provisional; Region: PRK11267 994484018968 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 994484018969 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 994484018970 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 994484018971 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 994484018972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484018973 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 994484018974 dimerization interface [polypeptide binding]; other site 994484018975 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 994484018976 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 994484018977 generic binding surface II; other site 994484018978 ssDNA binding site; other site 994484018979 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 994484018980 ATP binding site [chemical binding]; other site 994484018981 putative Mg++ binding site [ion binding]; other site 994484018982 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 994484018983 nucleotide binding region [chemical binding]; other site 994484018984 ATP-binding site [chemical binding]; other site 994484018985 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 994484018986 putative deacylase active site [active] 994484018987 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 994484018988 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 994484018989 Uncharacterized conserved protein [Function unknown]; Region: COG1262 994484018990 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 994484018991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484018992 Walker A/P-loop; other site 994484018993 ATP binding site [chemical binding]; other site 994484018994 Q-loop/lid; other site 994484018995 ABC transporter signature motif; other site 994484018996 Walker B; other site 994484018997 D-loop; other site 994484018998 H-loop/switch region; other site 994484018999 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 994484019000 Catalytic domain of Protein Kinases; Region: PKc; cd00180 994484019001 active site 994484019002 ATP binding site [chemical binding]; other site 994484019003 substrate binding site [chemical binding]; other site 994484019004 activation loop (A-loop); other site 994484019005 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 994484019006 metal ion-dependent adhesion site (MIDAS); other site 994484019007 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 994484019008 Protein phosphatase 2C; Region: PP2C; pfam00481 994484019009 active site 994484019010 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 994484019011 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 994484019012 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 994484019013 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 994484019014 hypothetical protein; Provisional; Region: PRK07033 994484019015 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 994484019016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 994484019017 ligand binding site [chemical binding]; other site 994484019018 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 994484019019 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 994484019020 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 994484019021 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 994484019022 phosphopeptide binding site; other site 994484019023 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 994484019024 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 994484019025 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 994484019026 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 994484019027 Protein of unknown function (DUF877); Region: DUF877; pfam05943 994484019028 Protein of unknown function (DUF796); Region: DUF796; pfam05638 994484019029 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 994484019030 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 994484019031 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 994484019032 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 994484019033 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 994484019034 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 994484019035 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484019036 Walker A motif; other site 994484019037 ATP binding site [chemical binding]; other site 994484019038 Walker B motif; other site 994484019039 arginine finger; other site 994484019040 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 994484019041 Walker A motif; other site 994484019042 ATP binding site [chemical binding]; other site 994484019043 Walker B motif; other site 994484019044 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 994484019045 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 994484019046 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 994484019047 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 994484019048 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 994484019049 PAAR motif; Region: PAAR_motif; pfam05488 994484019050 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484019051 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 994484019052 RHS Repeat; Region: RHS_repeat; pfam05593 994484019053 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484019054 RHS Repeat; Region: RHS_repeat; pfam05593 994484019055 RHS Repeat; Region: RHS_repeat; pfam05593 994484019056 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 994484019057 RHS Repeat; Region: RHS_repeat; cl11982 994484019058 RHS protein; Region: RHS; pfam03527 994484019059 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484019060 RES domain; Region: RES; smart00953 994484019061 PAAR motif; Region: PAAR_motif; pfam05488 994484019062 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 994484019063 RHS Repeat; Region: RHS_repeat; pfam05593 994484019064 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 994484019065 RHS Repeat; Region: RHS_repeat; pfam05593 994484019066 RHS Repeat; Region: RHS_repeat; pfam05593 994484019067 RHS Repeat; Region: RHS_repeat; pfam05593 994484019068 RHS Repeat; Region: RHS_repeat; pfam05593 994484019069 RHS Repeat; Region: RHS_repeat; cl11982 994484019070 RHS Repeat; Region: RHS_repeat; cl11982 994484019071 RHS protein; Region: RHS; pfam03527 994484019072 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 994484019073 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 994484019074 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 994484019075 AAA domain; Region: AAA_21; pfam13304 994484019076 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 994484019077 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 994484019078 active site 994484019079 Zn binding site [ion binding]; other site 994484019080 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 994484019081 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 994484019082 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 994484019083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 994484019084 DNA-binding site [nucleotide binding]; DNA binding site 994484019085 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 994484019086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 994484019087 homodimer interface [polypeptide binding]; other site 994484019088 catalytic residue [active] 994484019089 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 994484019090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 994484019091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 994484019092 Coenzyme A binding pocket [chemical binding]; other site 994484019093 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 994484019094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 994484019095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 994484019096 OTU-like cysteine protease; Region: OTU; pfam02338 994484019097 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 994484019098 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 994484019099 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 994484019100 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 994484019101 substrate binding pocket [chemical binding]; other site 994484019102 membrane-bound complex binding site; other site 994484019103 hinge residues; other site 994484019104 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 994484019105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 994484019106 dimer interface [polypeptide binding]; other site 994484019107 conserved gate region; other site 994484019108 putative PBP binding loops; other site 994484019109 ABC-ATPase subunit interface; other site 994484019110 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 994484019111 Autotransporter beta-domain; Region: Autotransporter; smart00869 994484019112 pyruvate carboxylase subunit B; Validated; Region: PRK09282 994484019113 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 994484019114 active site 994484019115 catalytic residues [active] 994484019116 metal binding site [ion binding]; metal-binding site 994484019117 homodimer binding site [polypeptide binding]; other site 994484019118 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 994484019119 carboxyltransferase (CT) interaction site; other site 994484019120 biotinylation site [posttranslational modification]; other site 994484019121 pyruvate carboxylase subunit A; Validated; Region: PRK07178 994484019122 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 994484019123 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 994484019124 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 994484019125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 994484019126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484019127 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 994484019128 putative dimerization interface [polypeptide binding]; other site 994484019129 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 994484019130 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 994484019131 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 994484019132 putative active site [active] 994484019133 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 994484019134 PAS fold; Region: PAS_3; pfam08447 994484019135 putative active site [active] 994484019136 heme pocket [chemical binding]; other site 994484019137 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 994484019138 PAS domain; Region: PAS_9; pfam13426 994484019139 putative active site [active] 994484019140 heme pocket [chemical binding]; other site 994484019141 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 994484019142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 994484019143 metal binding site [ion binding]; metal-binding site 994484019144 active site 994484019145 I-site; other site 994484019146 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 994484019147 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 994484019148 Part of AAA domain; Region: AAA_19; pfam13245 994484019149 Family description; Region: UvrD_C_2; pfam13538 994484019150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 994484019151 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 994484019152 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 994484019153 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 994484019154 pyridoxamine kinase; Validated; Region: PRK05756 994484019155 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 994484019156 pyridoxal binding site [chemical binding]; other site 994484019157 dimer interface [polypeptide binding]; other site 994484019158 ATP binding site [chemical binding]; other site 994484019159 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 994484019160 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 994484019161 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 994484019162 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 994484019163 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 994484019164 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 994484019165 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 994484019166 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 994484019167 putative GTP cyclohydrolase; Provisional; Region: PRK13674 994484019168 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 994484019169 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 994484019170 Walker A/P-loop; other site 994484019171 ATP binding site [chemical binding]; other site 994484019172 Q-loop/lid; other site 994484019173 ABC transporter signature motif; other site 994484019174 Walker B; other site 994484019175 D-loop; other site 994484019176 H-loop/switch region; other site 994484019177 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 994484019178 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 994484019179 ABC-ATPase subunit interface; other site 994484019180 dimer interface [polypeptide binding]; other site 994484019181 putative PBP binding regions; other site 994484019182 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 994484019183 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 994484019184 metal binding site [ion binding]; metal-binding site 994484019185 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 994484019186 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 994484019187 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 994484019188 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 994484019189 putative active site [active] 994484019190 catalytic site [active] 994484019191 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 994484019192 putative active site [active] 994484019193 catalytic site [active] 994484019194 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 994484019195 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 994484019196 S-adenosylmethionine binding site [chemical binding]; other site 994484019197 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 994484019198 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 994484019199 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 994484019200 HflK protein; Region: hflK; TIGR01933 994484019201 HflC protein; Region: hflC; TIGR01932 994484019202 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 994484019203 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 994484019204 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 994484019205 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 994484019206 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 994484019207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 994484019208 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 994484019209 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 994484019210 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 994484019211 S-adenosylmethionine binding site [chemical binding]; other site 994484019212 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 994484019213 Methyltransferase domain; Region: Methyltransf_23; pfam13489 994484019214 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 994484019215 S-adenosylmethionine binding site [chemical binding]; other site 994484019216 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484019217 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 994484019218 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 994484019219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484019220 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 994484019221 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 994484019222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 994484019223 NAD(P) binding site [chemical binding]; other site 994484019224 active site 994484019225 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 994484019226 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 994484019227 NADP-binding site; other site 994484019228 homotetramer interface [polypeptide binding]; other site 994484019229 substrate binding site [chemical binding]; other site 994484019230 homodimer interface [polypeptide binding]; other site 994484019231 active site 994484019232 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 994484019233 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 994484019234 Substrate binding site; other site 994484019235 Cupin domain; Region: Cupin_2; cl17218 994484019236 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 994484019237 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 994484019238 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 994484019239 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 994484019240 Walker A/P-loop; other site 994484019241 ATP binding site [chemical binding]; other site 994484019242 Q-loop/lid; other site 994484019243 ABC transporter signature motif; other site 994484019244 Walker B; other site 994484019245 D-loop; other site 994484019246 H-loop/switch region; other site 994484019247 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 994484019248 putative carbohydrate binding site [chemical binding]; other site 994484019249 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 994484019250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484019251 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484019252 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 994484019253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 994484019254 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 994484019255 putative ADP-binding pocket [chemical binding]; other site 994484019256 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 994484019257 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 994484019258 putative C-terminal domain interface [polypeptide binding]; other site 994484019259 putative GSH binding site (G-site) [chemical binding]; other site 994484019260 putative dimer interface [polypeptide binding]; other site 994484019261 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 994484019262 putative N-terminal domain interface [polypeptide binding]; other site 994484019263 putative dimer interface [polypeptide binding]; other site 994484019264 putative substrate binding pocket (H-site) [chemical binding]; other site 994484019265 transcriptional regulator; Provisional; Region: PRK10632 994484019266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 994484019267 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 994484019268 putative effector binding pocket; other site 994484019269 putative dimerization interface [polypeptide binding]; other site 994484019270 Sulfatase; Region: Sulfatase; pfam00884 994484019271 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 994484019272 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 994484019273 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 994484019274 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 994484019275 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 994484019276 conserved cys residue [active] 994484019277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484019278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 994484019279 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 994484019280 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 994484019281 dimer interface [polypeptide binding]; other site 994484019282 ADP-ribose binding site [chemical binding]; other site 994484019283 active site 994484019284 nudix motif; other site 994484019285 metal binding site [ion binding]; metal-binding site 994484019286 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 994484019287 Cache domain; Region: Cache_1; pfam02743 994484019288 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 994484019289 dimerization interface [polypeptide binding]; other site 994484019290 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 994484019291 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 994484019292 dimer interface [polypeptide binding]; other site 994484019293 putative CheW interface [polypeptide binding]; other site 994484019294 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 994484019295 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 994484019296 homodimer interface [polypeptide binding]; other site 994484019297 NAD binding pocket [chemical binding]; other site 994484019298 ATP binding pocket [chemical binding]; other site 994484019299 Mg binding site [ion binding]; other site 994484019300 active-site loop [active] 994484019301 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 994484019302 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 994484019303 active site 994484019304 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 994484019305 Isochorismatase family; Region: Isochorismatase; pfam00857 994484019306 catalytic triad [active] 994484019307 metal binding site [ion binding]; metal-binding site 994484019308 conserved cis-peptide bond; other site 994484019309 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 994484019310 active site 994484019311 nucleotide binding site [chemical binding]; other site 994484019312 HIGH motif; other site 994484019313 KMSKS motif; other site 994484019314 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 994484019315 nudix motif; other site 994484019316 HipA-like N-terminal domain; Region: HipA_N; pfam07805 994484019317 HipA-like C-terminal domain; Region: HipA_C; pfam07804 994484019318 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 994484019319 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 994484019320 glutaminase active site [active] 994484019321 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 994484019322 dimer interface [polypeptide binding]; other site 994484019323 active site 994484019324 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 994484019325 dimer interface [polypeptide binding]; other site 994484019326 active site 994484019327 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 994484019328 putative DNA binding site [nucleotide binding]; other site 994484019329 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 994484019330 putative Zn2+ binding site [ion binding]; other site 994484019331 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 994484019332 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 994484019333 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 994484019334 Substrate binding site; other site 994484019335 Mg++ binding site; other site 994484019336 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 994484019337 active site 994484019338 substrate binding site [chemical binding]; other site 994484019339 CoA binding site [chemical binding]; other site 994484019340 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 994484019341 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 994484019342 gamma subunit interface [polypeptide binding]; other site 994484019343 epsilon subunit interface [polypeptide binding]; other site 994484019344 LBP interface [polypeptide binding]; other site 994484019345 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 994484019346 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 994484019347 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 994484019348 alpha subunit interaction interface [polypeptide binding]; other site 994484019349 Walker A motif; other site 994484019350 ATP binding site [chemical binding]; other site 994484019351 Walker B motif; other site 994484019352 inhibitor binding site; inhibition site 994484019353 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 994484019354 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 994484019355 core domain interface [polypeptide binding]; other site 994484019356 delta subunit interface [polypeptide binding]; other site 994484019357 epsilon subunit interface [polypeptide binding]; other site 994484019358 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 994484019359 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 994484019360 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 994484019361 beta subunit interaction interface [polypeptide binding]; other site 994484019362 Walker A motif; other site 994484019363 ATP binding site [chemical binding]; other site 994484019364 Walker B motif; other site 994484019365 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 994484019366 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 994484019367 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 994484019368 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 994484019369 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 994484019370 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 994484019371 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 994484019372 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 994484019373 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 994484019374 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 994484019375 ParB-like nuclease domain; Region: ParBc; pfam02195 994484019376 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 994484019377 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 994484019378 P-loop; other site 994484019379 Magnesium ion binding site [ion binding]; other site 994484019380 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 994484019381 Magnesium ion binding site [ion binding]; other site 994484019382 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 994484019383 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 994484019384 S-adenosylmethionine binding site [chemical binding]; other site 994484019385 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 994484019386 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 994484019387 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 994484019388 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 994484019389 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 994484019390 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 994484019391 trmE is a tRNA modification GTPase; Region: trmE; cd04164 994484019392 G1 box; other site 994484019393 GTP/Mg2+ binding site [chemical binding]; other site 994484019394 Switch I region; other site 994484019395 G2 box; other site 994484019396 Switch II region; other site 994484019397 G3 box; other site 994484019398 G4 box; other site 994484019399 G5 box; other site 994484019400 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 994484019401 membrane protein insertase; Provisional; Region: PRK01318 994484019402 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 994484019403 hypothetical protein; Provisional; Region: PRK14371 994484019404 ribonuclease P; Reviewed; Region: rnpA; PRK00396