-- dump date 20140618_190139 -- class Genbank::misc_feature -- table misc_feature_note -- id note 400667000001 Initiator Replication protein; Region: Rep_3; pfam01051 400667000002 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400667000003 DNA binding residues [nucleotide binding] 400667000004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667000005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667000006 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 400667000007 putative dimerization interface [polypeptide binding]; other site 400667000008 diaminopimelate decarboxylase; Provisional; Region: PRK11165 400667000009 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 400667000010 active site 400667000011 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667000012 substrate binding site [chemical binding]; other site 400667000013 catalytic residues [active] 400667000014 dimer interface [polypeptide binding]; other site 400667000015 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 400667000016 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 400667000017 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400667000018 Sel1-like repeats; Region: SEL1; smart00671 400667000019 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 400667000020 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 400667000021 catalytic residues [active] 400667000022 catalytic nucleophile [active] 400667000023 Uncharacterized conserved protein [Function unknown]; Region: COG1479 400667000024 Protein of unknown function DUF262; Region: DUF262; pfam03235 400667000025 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 400667000026 non-specific DNA binding site [nucleotide binding]; other site 400667000027 salt bridge; other site 400667000028 sequence-specific DNA binding site [nucleotide binding]; other site 400667000029 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 400667000030 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 400667000031 Initiator Replication protein; Region: Rep_3; pfam01051 400667000032 Secretory lipase; Region: LIP; pfam03583 400667000033 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 400667000034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667000035 NAD(P) binding site [chemical binding]; other site 400667000036 active site 400667000037 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 400667000038 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 400667000039 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 400667000040 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 400667000041 Walker A motif; other site 400667000042 ATP binding site [chemical binding]; other site 400667000043 Walker B motif; other site 400667000044 arginine finger; other site 400667000045 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 400667000046 DnaA box-binding interface [nucleotide binding]; other site 400667000047 DNA polymerase III subunit beta; Validated; Region: PRK05643 400667000048 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 400667000049 dimer interface [polypeptide binding]; other site 400667000050 putative DNA binding surface [nucleotide binding]; other site 400667000051 beta-clamp/clamp loader binding surface; other site 400667000052 beta-clamp/translesion DNA polymerase binding surface; other site 400667000053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667000054 Q-loop/lid; other site 400667000055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667000056 ABC transporter signature motif; other site 400667000057 Walker B; other site 400667000058 D-loop; other site 400667000059 H-loop/switch region; other site 400667000060 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 400667000061 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 400667000062 ATP binding site [chemical binding]; other site 400667000063 Mg2+ binding site [ion binding]; other site 400667000064 G-X-G motif; other site 400667000065 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 400667000066 anchoring element; other site 400667000067 dimer interface [polypeptide binding]; other site 400667000068 ATP binding site [chemical binding]; other site 400667000069 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 400667000070 active site 400667000071 putative metal-binding site [ion binding]; other site 400667000072 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 400667000073 Cytochrome b562; Region: Cytochrom_B562; cl01546 400667000074 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 400667000075 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 400667000076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667000077 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 400667000078 Walker A/P-loop; other site 400667000079 ATP binding site [chemical binding]; other site 400667000080 Q-loop/lid; other site 400667000081 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667000082 ABC transporter; Region: ABC_tran_2; pfam12848 400667000083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667000084 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 400667000085 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 400667000086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667000087 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 400667000088 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 400667000089 dimer interface [polypeptide binding]; other site 400667000090 active site 400667000091 KMSKS motif; other site 400667000092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 400667000093 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 400667000094 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 400667000095 active site 400667000096 DNA binding site [nucleotide binding] 400667000097 Int/Topo IB signature motif; other site 400667000098 Predicted flavoprotein [General function prediction only]; Region: COG0431 400667000099 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667000100 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 400667000101 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400667000102 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 400667000103 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 400667000104 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400667000105 active site 400667000106 HIGH motif; other site 400667000107 nucleotide binding site [chemical binding]; other site 400667000108 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 400667000109 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 400667000110 active site 400667000111 KMSKS motif; other site 400667000112 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 400667000113 tRNA binding surface [nucleotide binding]; other site 400667000114 anticodon binding site; other site 400667000115 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 400667000116 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 400667000117 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 400667000118 gating phenylalanine in ion channel; other site 400667000119 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 400667000120 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 400667000121 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 400667000122 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 400667000123 Walker A/P-loop; other site 400667000124 ATP binding site [chemical binding]; other site 400667000125 Q-loop/lid; other site 400667000126 ABC transporter signature motif; other site 400667000127 Walker B; other site 400667000128 D-loop; other site 400667000129 H-loop/switch region; other site 400667000130 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 400667000131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667000132 putative PBP binding loops; other site 400667000133 dimer interface [polypeptide binding]; other site 400667000134 ABC-ATPase subunit interface; other site 400667000135 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 400667000136 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 400667000137 dimer interface [polypeptide binding]; other site 400667000138 active site 400667000139 non-prolyl cis peptide bond; other site 400667000140 insertion regions; other site 400667000141 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 400667000142 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 400667000143 substrate binding pocket [chemical binding]; other site 400667000144 membrane-bound complex binding site; other site 400667000145 hinge residues; other site 400667000146 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 400667000147 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 400667000148 substrate binding pocket [chemical binding]; other site 400667000149 membrane-bound complex binding site; other site 400667000150 hinge residues; other site 400667000151 N-acetylglutamate synthase; Validated; Region: PRK05279 400667000152 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 400667000153 putative nucleotide binding site [chemical binding]; other site 400667000154 putative substrate binding site [chemical binding]; other site 400667000155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667000156 Coenzyme A binding pocket [chemical binding]; other site 400667000157 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 400667000158 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 400667000159 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 400667000160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667000161 NAD(P) binding site [chemical binding]; other site 400667000162 active site 400667000163 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 400667000164 active site 400667000165 motif I; other site 400667000166 motif II; other site 400667000167 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 400667000168 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 400667000169 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 400667000170 catalytic residues [active] 400667000171 hinge region; other site 400667000172 alpha helical domain; other site 400667000173 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 400667000174 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_2; cd06216 400667000175 FAD binding pocket [chemical binding]; other site 400667000176 FAD binding motif [chemical binding]; other site 400667000177 phosphate binding motif [ion binding]; other site 400667000178 beta-alpha-beta structure motif; other site 400667000179 NAD binding pocket [chemical binding]; other site 400667000180 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 400667000181 catalytic loop [active] 400667000182 iron binding site [ion binding]; other site 400667000183 Fatty acid desaturase; Region: FA_desaturase; pfam00487 400667000184 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 400667000185 putative di-iron ligands [ion binding]; other site 400667000186 ribonuclease PH; Reviewed; Region: rph; PRK00173 400667000187 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 400667000188 oligomer interface [polypeptide binding]; other site 400667000189 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 400667000190 Phosphoesterase family; Region: Phosphoesterase; pfam04185 400667000191 Domain of unknown function (DUF756); Region: DUF756; pfam05506 400667000192 Domain of unknown function (DUF756); Region: DUF756; pfam05506 400667000193 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 400667000194 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 400667000195 dimerization interface [polypeptide binding]; other site 400667000196 active site 400667000197 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 400667000198 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 400667000199 amidase catalytic site [active] 400667000200 Zn binding residues [ion binding]; other site 400667000201 substrate binding site [chemical binding]; other site 400667000202 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 400667000203 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 400667000204 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 400667000205 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 400667000206 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400667000207 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 400667000208 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 400667000209 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400667000210 Chain length determinant protein; Region: Wzz; cl15801 400667000211 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 400667000212 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 400667000213 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 400667000214 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 400667000215 Low molecular weight phosphatase family; Region: LMWPc; cd00115 400667000216 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 400667000217 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 400667000218 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 400667000219 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 400667000220 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 400667000221 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400667000222 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400667000223 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400667000224 putative trimer interface [polypeptide binding]; other site 400667000225 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 400667000226 putative CoA binding site [chemical binding]; other site 400667000227 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 400667000228 putative trimer interface [polypeptide binding]; other site 400667000229 putative active site [active] 400667000230 putative substrate binding site [chemical binding]; other site 400667000231 putative CoA binding site [chemical binding]; other site 400667000232 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 400667000233 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 400667000234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667000235 inhibitor-cofactor binding pocket; inhibition site 400667000236 catalytic residue [active] 400667000237 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 400667000238 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 400667000239 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 400667000240 trimer interface [polypeptide binding]; other site 400667000241 active site 400667000242 substrate binding site [chemical binding]; other site 400667000243 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 400667000244 CoA binding site [chemical binding]; other site 400667000245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400667000246 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 400667000247 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 400667000248 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400667000249 putative ADP-binding pocket [chemical binding]; other site 400667000250 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 400667000251 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 400667000252 active site 400667000253 Bacterial sugar transferase; Region: Bac_transf; pfam02397 400667000254 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 400667000255 tetramer interface; other site 400667000256 active site 400667000257 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 400667000258 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 400667000259 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 400667000260 Phosphoglucose isomerase; Region: PGI; pfam00342 400667000261 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 400667000262 active site 400667000263 dimer interface [polypeptide binding]; other site 400667000264 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 400667000265 dimer interface [polypeptide binding]; other site 400667000266 active site 400667000267 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 400667000268 NAD binding site [chemical binding]; other site 400667000269 homodimer interface [polypeptide binding]; other site 400667000270 active site 400667000271 substrate binding site [chemical binding]; other site 400667000272 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 400667000273 active site 400667000274 substrate binding site [chemical binding]; other site 400667000275 metal binding site [ion binding]; metal-binding site 400667000276 L-lactate permease; Provisional; Region: PRK10420 400667000277 glycolate transporter; Provisional; Region: PRK09695 400667000278 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 400667000279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667000280 DNA-binding site [nucleotide binding]; DNA binding site 400667000281 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400667000282 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 400667000283 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 400667000284 active site 400667000285 FMN binding site [chemical binding]; other site 400667000286 substrate binding site [chemical binding]; other site 400667000287 putative catalytic residues [active] 400667000288 D-lactate dehydrogenase; Provisional; Region: PRK11183 400667000289 FAD binding domain; Region: FAD_binding_4; pfam01565 400667000290 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 400667000291 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 400667000292 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 400667000293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667000294 homodimer interface [polypeptide binding]; other site 400667000295 catalytic residue [active] 400667000296 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400667000297 FCD domain; Region: FCD; pfam07729 400667000298 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 400667000299 tetramer interface [polypeptide binding]; other site 400667000300 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 400667000301 active site 400667000302 Mg2+/Mn2+ binding site [ion binding]; other site 400667000303 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 400667000304 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 400667000305 substrate binding site [chemical binding]; other site 400667000306 ligand binding site [chemical binding]; other site 400667000307 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 400667000308 substrate binding site [chemical binding]; other site 400667000309 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 400667000310 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 400667000311 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 400667000312 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400667000313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667000314 Coenzyme A binding pocket [chemical binding]; other site 400667000315 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 400667000316 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 400667000317 dimer interface [polypeptide binding]; other site 400667000318 active site 400667000319 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400667000320 Sel1-like repeats; Region: SEL1; smart00671 400667000321 Sel1-like repeats; Region: SEL1; smart00671 400667000322 Sel1-like repeats; Region: SEL1; smart00671 400667000323 Sel1-like repeats; Region: SEL1; smart00671 400667000324 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667000325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667000326 NAD(P) binding site [chemical binding]; other site 400667000327 active site 400667000328 Predicted membrane protein [Function unknown]; Region: COG4420 400667000329 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400667000330 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 400667000331 active site 400667000332 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 400667000333 SnoaL-like domain; Region: SnoaL_2; pfam12680 400667000334 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667000335 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 400667000336 N-terminal plug; other site 400667000337 ligand-binding site [chemical binding]; other site 400667000338 Predicted membrane protein [Function unknown]; Region: COG3503 400667000339 AsnC family; Region: AsnC_trans_reg; pfam01037 400667000340 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 400667000341 mRNA stabilisation; Region: mRNA_stabil; pfam13929 400667000342 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 400667000343 alanine racemase; Reviewed; Region: dadX; PRK03646 400667000344 active site 400667000345 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667000346 substrate binding site [chemical binding]; other site 400667000347 catalytic residues [active] 400667000348 dimer interface [polypeptide binding]; other site 400667000349 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 400667000350 homotrimer interaction site [polypeptide binding]; other site 400667000351 putative active site [active] 400667000352 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 400667000353 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 400667000354 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667000355 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667000356 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 400667000357 dimerization interface [polypeptide binding]; other site 400667000358 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400667000359 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667000360 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667000361 acyl-activating enzyme (AAE) consensus motif; other site 400667000362 AMP binding site [chemical binding]; other site 400667000363 active site 400667000364 CoA binding site [chemical binding]; other site 400667000365 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667000366 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667000367 active site 400667000368 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 400667000369 trimer interface [polypeptide binding]; other site 400667000370 oxyanion hole (OAH) forming residues; other site 400667000371 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 400667000372 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 400667000373 substrate binding site [chemical binding]; other site 400667000374 oxyanion hole (OAH) forming residues; other site 400667000375 trimer interface [polypeptide binding]; other site 400667000376 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 400667000377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667000378 metabolite-proton symporter; Region: 2A0106; TIGR00883 400667000379 putative substrate translocation pore; other site 400667000380 Autoinducer synthetase; Region: Autoind_synth; cl17404 400667000381 Autoinducer binding domain; Region: Autoind_bind; pfam03472 400667000382 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 400667000383 DNA binding residues [nucleotide binding] 400667000384 dimerization interface [polypeptide binding]; other site 400667000385 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667000386 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 400667000387 acyl-activating enzyme (AAE) consensus motif; other site 400667000388 active site 400667000389 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667000390 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 400667000391 active site 400667000392 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 400667000393 Condensation domain; Region: Condensation; pfam00668 400667000394 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667000395 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400667000396 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 400667000397 acyl-activating enzyme (AAE) consensus motif; other site 400667000398 AMP binding site [chemical binding]; other site 400667000399 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400667000400 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 400667000401 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 400667000402 hydrophobic ligand binding site; other site 400667000403 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 400667000404 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 400667000405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667000406 NAD(P) binding site [chemical binding]; other site 400667000407 active site 400667000408 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667000409 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 400667000410 catalytic site [active] 400667000411 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400667000412 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 400667000413 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 400667000414 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 400667000415 Magnesium ion binding site [ion binding]; other site 400667000416 LysE type translocator; Region: LysE; cl00565 400667000417 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 400667000418 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 400667000419 Predicted membrane protein [Function unknown]; Region: COG2259 400667000420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 400667000421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 400667000422 GMP synthase; Reviewed; Region: guaA; PRK00074 400667000423 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 400667000424 AMP/PPi binding site [chemical binding]; other site 400667000425 candidate oxyanion hole; other site 400667000426 catalytic triad [active] 400667000427 potential glutamine specificity residues [chemical binding]; other site 400667000428 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 400667000429 ATP Binding subdomain [chemical binding]; other site 400667000430 Ligand Binding sites [chemical binding]; other site 400667000431 Dimerization subdomain; other site 400667000432 aminoglycoside resistance protein; Provisional; Region: PRK13746 400667000433 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 400667000434 Predicted transcriptional regulators [Transcription]; Region: COG1695 400667000435 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 400667000436 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 400667000437 Pirin-related protein [General function prediction only]; Region: COG1741 400667000438 Pirin; Region: Pirin; pfam02678 400667000439 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 400667000440 OsmC-like protein; Region: OsmC; pfam02566 400667000441 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400667000442 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 400667000443 putative C-terminal domain interface [polypeptide binding]; other site 400667000444 putative GSH binding site (G-site) [chemical binding]; other site 400667000445 putative dimer interface [polypeptide binding]; other site 400667000446 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 400667000447 putative N-terminal domain interface [polypeptide binding]; other site 400667000448 putative dimer interface [polypeptide binding]; other site 400667000449 putative substrate binding pocket (H-site) [chemical binding]; other site 400667000450 Sporulation related domain; Region: SPOR; pfam05036 400667000451 malate dehydrogenase; Provisional; Region: PRK13529 400667000452 Malic enzyme, N-terminal domain; Region: malic; pfam00390 400667000453 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 400667000454 NAD(P) binding site [chemical binding]; other site 400667000455 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 400667000456 LysE type translocator; Region: LysE; cl00565 400667000457 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 400667000458 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 400667000459 dimer interface [polypeptide binding]; other site 400667000460 ABC-ATPase subunit interface; other site 400667000461 putative PBP binding regions; other site 400667000462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667000463 Q-loop/lid; other site 400667000464 ABC transporter signature motif; other site 400667000465 Walker B; other site 400667000466 D-loop; other site 400667000467 H-loop/switch region; other site 400667000468 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 400667000469 metal binding site 2 [ion binding]; metal-binding site 400667000470 putative DNA binding helix; other site 400667000471 metal binding site 1 [ion binding]; metal-binding site 400667000472 dimer interface [polypeptide binding]; other site 400667000473 structural Zn2+ binding site [ion binding]; other site 400667000474 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 400667000475 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 400667000476 ATP synthase I chain; Region: ATP_synt_I; cl09170 400667000477 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 400667000478 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 400667000479 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 400667000480 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 400667000481 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 400667000482 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 400667000483 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 400667000484 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 400667000485 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 400667000486 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 400667000487 Walker A motif; other site 400667000488 ATP binding site [chemical binding]; other site 400667000489 Walker B motif; other site 400667000490 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 400667000491 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 400667000492 core domain interface [polypeptide binding]; other site 400667000493 delta subunit interface [polypeptide binding]; other site 400667000494 epsilon subunit interface [polypeptide binding]; other site 400667000495 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 400667000496 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 400667000497 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 400667000498 alpha subunit interaction interface [polypeptide binding]; other site 400667000499 Walker A motif; other site 400667000500 ATP binding site [chemical binding]; other site 400667000501 Walker B motif; other site 400667000502 inhibitor binding site; inhibition site 400667000503 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 400667000504 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 400667000505 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 400667000506 LBP interface [polypeptide binding]; other site 400667000507 epsilon subunit interface [polypeptide binding]; other site 400667000508 gamma subunit interface [polypeptide binding]; other site 400667000509 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 400667000510 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 400667000511 catalytic residues [active] 400667000512 dimer interface [polypeptide binding]; other site 400667000513 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667000514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667000515 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400667000516 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667000517 putative substrate translocation pore; other site 400667000518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667000519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667000520 EamA-like transporter family; Region: EamA; pfam00892 400667000521 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400667000522 EamA-like transporter family; Region: EamA; pfam00892 400667000523 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 400667000524 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 400667000525 DNA protecting protein DprA; Region: dprA; TIGR00732 400667000526 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 400667000527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667000528 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 400667000529 active site 400667000530 catalytic residues [active] 400667000531 metal binding site [ion binding]; metal-binding site 400667000532 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 400667000533 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 400667000534 N-terminal plug; other site 400667000535 ligand-binding site [chemical binding]; other site 400667000536 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 400667000537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667000538 Coenzyme A binding pocket [chemical binding]; other site 400667000539 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 400667000540 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 400667000541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667000542 dimer interface [polypeptide binding]; other site 400667000543 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 400667000544 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 400667000545 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667000546 catalytic residue [active] 400667000547 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667000548 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 400667000549 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 400667000550 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 400667000551 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 400667000552 DNA binding residues [nucleotide binding] 400667000553 putative dimer interface [polypeptide binding]; other site 400667000554 putative metal binding residues [ion binding]; other site 400667000555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 400667000556 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 400667000557 hypothetical protein; Provisional; Region: PRK01254 400667000558 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 400667000559 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 400667000560 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 400667000561 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 400667000562 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 400667000563 homotrimer interaction site [polypeptide binding]; other site 400667000564 putative active site [active] 400667000565 DNA polymerase IV; Validated; Region: PRK02406 400667000566 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 400667000567 DNA binding site [nucleotide binding] 400667000568 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 400667000569 active site 400667000570 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 400667000571 putative transporter; Provisional; Region: PRK10504 400667000572 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667000573 putative substrate translocation pore; other site 400667000574 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667000575 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 400667000576 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 400667000577 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 400667000578 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 400667000579 Transporter associated domain; Region: CorC_HlyC; smart01091 400667000580 hypothetical protein; Provisional; Region: PRK01752 400667000581 SEC-C motif; Region: SEC-C; pfam02810 400667000582 Predicted membrane protein [Function unknown]; Region: COG2860 400667000583 UPF0126 domain; Region: UPF0126; pfam03458 400667000584 UPF0126 domain; Region: UPF0126; pfam03458 400667000585 benzoate transport; Region: 2A0115; TIGR00895 400667000586 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667000587 putative substrate translocation pore; other site 400667000588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667000589 MAPEG family; Region: MAPEG; cl09190 400667000590 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 400667000591 substrate binding site [chemical binding]; other site 400667000592 metal binding sites [ion binding]; metal-binding site 400667000593 dimer interface [polypeptide binding]; other site 400667000594 outer membrane porin, OprD family; Region: OprD; pfam03573 400667000595 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 400667000596 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 400667000597 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400667000598 dimer interface [polypeptide binding]; other site 400667000599 catalytic residue [active] 400667000600 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 400667000601 intersubunit interface [polypeptide binding]; other site 400667000602 active site 400667000603 Zn2+ binding site [ion binding]; other site 400667000604 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 400667000605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667000606 DNA-binding site [nucleotide binding]; DNA binding site 400667000607 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 400667000608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667000609 homodimer interface [polypeptide binding]; other site 400667000610 catalytic residue [active] 400667000611 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 400667000612 DDE superfamily endonuclease; Region: DDE_5; cl17874 400667000613 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 400667000614 Helix-turn-helix domain; Region: HTH_28; pfam13518 400667000615 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 400667000616 Bacterial TniB protein; Region: TniB; pfam05621 400667000617 AAA domain; Region: AAA_22; pfam13401 400667000618 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK14811 400667000619 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 400667000620 Ligand Binding Site [chemical binding]; other site 400667000621 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 400667000622 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400667000623 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 400667000624 Membrane fusogenic activity; Region: BMFP; pfam04380 400667000625 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 400667000626 Nitrogen regulatory protein P-II; Region: P-II; smart00938 400667000627 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 400667000628 ATP cone domain; Region: ATP-cone; pfam03477 400667000629 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 400667000630 catalytic motif [active] 400667000631 Zn binding site [ion binding]; other site 400667000632 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 400667000633 RibD C-terminal domain; Region: RibD_C; cl17279 400667000634 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 400667000635 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 400667000636 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 400667000637 Lumazine binding domain; Region: Lum_binding; pfam00677 400667000638 Lumazine binding domain; Region: Lum_binding; pfam00677 400667000639 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 400667000640 multifunctional aminopeptidase A; Provisional; Region: PRK00913 400667000641 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 400667000642 interface (dimer of trimers) [polypeptide binding]; other site 400667000643 Substrate-binding/catalytic site; other site 400667000644 Zn-binding sites [ion binding]; other site 400667000645 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 400667000646 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 400667000647 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 400667000648 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 400667000649 phosphoglyceromutase; Provisional; Region: PRK05434 400667000650 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 400667000651 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 400667000652 C-terminal peptidase (prc); Region: prc; TIGR00225 400667000653 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 400667000654 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 400667000655 Catalytic dyad [active] 400667000656 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400667000657 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 400667000658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667000659 active site 400667000660 phosphorylation site [posttranslational modification] 400667000661 intermolecular recognition site; other site 400667000662 dimerization interface [polypeptide binding]; other site 400667000663 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 400667000664 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 400667000665 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 400667000666 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 400667000667 dimer interface [polypeptide binding]; other site 400667000668 phosphorylation site [posttranslational modification] 400667000669 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 400667000670 ATP binding site [chemical binding]; other site 400667000671 Mg2+ binding site [ion binding]; other site 400667000672 G-X-G motif; other site 400667000673 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400667000674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667000675 active site 400667000676 phosphorylation site [posttranslational modification] 400667000677 intermolecular recognition site; other site 400667000678 dimerization interface [polypeptide binding]; other site 400667000679 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 400667000680 DNA binding residues [nucleotide binding] 400667000681 dimerization interface [polypeptide binding]; other site 400667000682 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 400667000683 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 400667000684 threonine synthase; Reviewed; Region: PRK06721 400667000685 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 400667000686 homodimer interface [polypeptide binding]; other site 400667000687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667000688 catalytic residue [active] 400667000689 homoserine dehydrogenase; Provisional; Region: PRK06349 400667000690 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 400667000691 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 400667000692 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 400667000693 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 400667000694 dimer interface [polypeptide binding]; other site 400667000695 catalytic residues [active] 400667000696 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 400667000697 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 400667000698 active site 400667000699 DNA binding site [nucleotide binding] 400667000700 Int/Topo IB signature motif; other site 400667000701 FeoA domain; Region: FeoA; pfam04023 400667000702 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 400667000703 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 400667000704 G3 box; other site 400667000705 Switch II region; other site 400667000706 GTP/Mg2+ binding site [chemical binding]; other site 400667000707 G4 box; other site 400667000708 G5 box; other site 400667000709 Nucleoside recognition; Region: Gate; pfam07670 400667000710 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 400667000711 Nucleoside recognition; Region: Gate; pfam07670 400667000712 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 400667000713 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400667000714 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400667000715 cell division protein FtsW; Region: ftsW; TIGR02614 400667000716 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 400667000717 active site 400667000718 nucleotide binding site [chemical binding]; other site 400667000719 HIGH motif; other site 400667000720 KMSKS motif; other site 400667000721 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 400667000722 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 400667000723 hexamer interface [polypeptide binding]; other site 400667000724 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 400667000725 active site 400667000726 metal binding site [ion binding]; metal-binding site 400667000727 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 400667000728 dimer interface [polypeptide binding]; other site 400667000729 ADP-ribose binding site [chemical binding]; other site 400667000730 active site 400667000731 nudix motif; other site 400667000732 metal binding site [ion binding]; metal-binding site 400667000733 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 400667000734 ThiC-associated domain; Region: ThiC-associated; pfam13667 400667000735 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 400667000736 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667000737 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400667000738 EamA-like transporter family; Region: EamA; pfam00892 400667000739 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 400667000740 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 400667000741 PhoU domain; Region: PhoU; pfam01895 400667000742 PhoU domain; Region: PhoU; pfam01895 400667000743 oxidative damage protection protein; Provisional; Region: PRK05408 400667000744 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 400667000745 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 400667000746 argininosuccinate lyase; Provisional; Region: PRK00855 400667000747 active sites [active] 400667000748 tetramer interface [polypeptide binding]; other site 400667000749 Histidine kinase; Region: His_kinase; pfam06580 400667000750 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 400667000751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667000752 active site 400667000753 phosphorylation site [posttranslational modification] 400667000754 intermolecular recognition site; other site 400667000755 dimerization interface [polypeptide binding]; other site 400667000756 LytTr DNA-binding domain; Region: LytTR; smart00850 400667000757 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 400667000758 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 400667000759 domain interfaces; other site 400667000760 active site 400667000761 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 400667000762 active site 400667000763 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 400667000764 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 400667000765 active site 400667000766 H-NS histone family; Region: Histone_HNS; pfam00816 400667000767 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 400667000768 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 400667000769 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 400667000770 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 400667000771 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 400667000772 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 400667000773 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 400667000774 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 400667000775 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 400667000776 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 400667000777 phosphopeptide binding site; other site 400667000778 phosphoglycolate phosphatase; Provisional; Region: PRK13222 400667000779 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 400667000780 motif II; other site 400667000781 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 400667000782 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 400667000783 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 400667000784 elongation factor Tu; Reviewed; Region: PRK00049 400667000785 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 400667000786 G1 box; other site 400667000787 GEF interaction site [polypeptide binding]; other site 400667000788 GTP/Mg2+ binding site [chemical binding]; other site 400667000789 Switch I region; other site 400667000790 G2 box; other site 400667000791 G3 box; other site 400667000792 Switch II region; other site 400667000793 G4 box; other site 400667000794 G5 box; other site 400667000795 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 400667000796 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 400667000797 Antibiotic Binding Site [chemical binding]; other site 400667000798 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 400667000799 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 400667000800 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 400667000801 putative homodimer interface [polypeptide binding]; other site 400667000802 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 400667000803 heterodimer interface [polypeptide binding]; other site 400667000804 homodimer interface [polypeptide binding]; other site 400667000805 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 400667000806 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 400667000807 23S rRNA interface [nucleotide binding]; other site 400667000808 L7/L12 interface [polypeptide binding]; other site 400667000809 putative thiostrepton binding site; other site 400667000810 L25 interface [polypeptide binding]; other site 400667000811 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 400667000812 mRNA/rRNA interface [nucleotide binding]; other site 400667000813 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 400667000814 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 400667000815 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 400667000816 core dimer interface [polypeptide binding]; other site 400667000817 peripheral dimer interface [polypeptide binding]; other site 400667000818 L10 interface [polypeptide binding]; other site 400667000819 L11 interface [polypeptide binding]; other site 400667000820 putative EF-Tu interaction site [polypeptide binding]; other site 400667000821 putative EF-G interaction site [polypeptide binding]; other site 400667000822 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 400667000823 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 400667000824 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 400667000825 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 400667000826 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 400667000827 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 400667000828 RPB1 interaction site [polypeptide binding]; other site 400667000829 RPB11 interaction site [polypeptide binding]; other site 400667000830 RPB10 interaction site [polypeptide binding]; other site 400667000831 RPB3 interaction site [polypeptide binding]; other site 400667000832 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 400667000833 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 400667000834 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 400667000835 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 400667000836 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 400667000837 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 400667000838 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 400667000839 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 400667000840 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 400667000841 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 400667000842 DNA binding site [nucleotide binding] 400667000843 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 400667000844 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 400667000845 active site 2 [active] 400667000846 active site 1 [active] 400667000847 short chain dehydrogenase; Validated; Region: PRK05855 400667000848 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 400667000849 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 400667000850 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 400667000851 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 400667000852 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 400667000853 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400667000854 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 400667000855 DNA binding residues [nucleotide binding] 400667000856 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 400667000857 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667000858 hypothetical protein; Provisional; Region: PRK10215 400667000859 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 400667000860 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 400667000861 dimer interface [polypeptide binding]; other site 400667000862 active site 400667000863 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 400667000864 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 400667000865 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 400667000866 active site 400667000867 catalytic site [active] 400667000868 putative DNA binding site [nucleotide binding]; other site 400667000869 GIY-YIG motif/motif A; other site 400667000870 metal binding site [ion binding]; metal-binding site 400667000871 UvrB/uvrC motif; Region: UVR; pfam02151 400667000872 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 400667000873 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 400667000874 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 400667000875 active site 2 [active] 400667000876 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; cd00556 400667000877 active site 400667000878 dimer interface [polypeptide binding]; other site 400667000879 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 400667000880 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 400667000881 Bacterial transcriptional regulator; Region: IclR; pfam01614 400667000882 Fusaric acid resistance protein family; Region: FUSC; pfam04632 400667000883 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 400667000884 multidrug resistance protein MdtN; Provisional; Region: PRK10476 400667000885 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667000886 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667000887 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 400667000888 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 400667000889 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 400667000890 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 400667000891 Walker A/P-loop; other site 400667000892 ATP binding site [chemical binding]; other site 400667000893 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 400667000894 ABC transporter signature motif; other site 400667000895 Walker B; other site 400667000896 D-loop; other site 400667000897 H-loop/switch region; other site 400667000898 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 400667000899 binding surface 400667000900 Tetratricopeptide repeat; Region: TPR_16; pfam13432 400667000901 TPR motif; other site 400667000902 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 400667000903 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 400667000904 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 400667000905 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 400667000906 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400667000907 EamA-like transporter family; Region: EamA; pfam00892 400667000908 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 400667000909 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 400667000910 CoA-binding site [chemical binding]; other site 400667000911 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 400667000912 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 400667000913 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 400667000914 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 400667000915 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400667000916 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400667000917 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 400667000918 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 400667000919 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 400667000920 Walker A motif; other site 400667000921 ATP binding site [chemical binding]; other site 400667000922 Walker B motif; other site 400667000923 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 400667000924 dimer interface [polypeptide binding]; other site 400667000925 substrate binding site [chemical binding]; other site 400667000926 catalytic triad [active] 400667000927 Preprotein translocase SecG subunit; Region: SecG; pfam03840 400667000928 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 400667000929 Sm and related proteins; Region: Sm_like; cl00259 400667000930 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 400667000931 putative oligomer interface [polypeptide binding]; other site 400667000932 putative RNA binding site [nucleotide binding]; other site 400667000933 NusA N-terminal domain; Region: NusA_N; pfam08529 400667000934 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 400667000935 RNA binding site [nucleotide binding]; other site 400667000936 homodimer interface [polypeptide binding]; other site 400667000937 Transcription elongation factor [Transcription]; Region: NusA; COG0195 400667000938 NusA-like KH domain; Region: KH_5; pfam13184 400667000939 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 400667000940 G-X-X-G motif; other site 400667000941 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 400667000942 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 400667000943 Ribosome-binding factor A; Region: RBFA; cl00542 400667000944 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 400667000945 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 400667000946 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 400667000947 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400667000948 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 400667000949 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 400667000950 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400667000951 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 400667000952 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 400667000953 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 400667000954 AAA domain; Region: AAA_23; pfam13476 400667000955 Family description; Region: UvrD_C_2; pfam13538 400667000956 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 400667000957 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 400667000958 metal binding site [ion binding]; metal-binding site 400667000959 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 400667000960 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400667000961 ABC1 family; Region: ABC1; cl17513 400667000962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 400667000963 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 400667000964 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 400667000965 S-adenosylmethionine binding site [chemical binding]; other site 400667000966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 400667000967 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 400667000968 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 400667000969 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 400667000970 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 400667000971 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 400667000972 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 400667000973 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 400667000974 Family description; Region: UvrD_C_2; pfam13538 400667000975 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 400667000976 AAA domain; Region: AAA_30; pfam13604 400667000977 AAA domain; Region: AAA_22; pfam13401 400667000978 Family description; Region: UvrD_C_2; pfam13538 400667000979 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 400667000980 Beta-lactamase; Region: Beta-lactamase; pfam00144 400667000981 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 400667000982 16S/18S rRNA binding site [nucleotide binding]; other site 400667000983 S13e-L30e interaction site [polypeptide binding]; other site 400667000984 25S rRNA binding site [nucleotide binding]; other site 400667000985 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 400667000986 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 400667000987 trimer interface [polypeptide binding]; other site 400667000988 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 400667000989 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 400667000990 RNase E interface [polypeptide binding]; other site 400667000991 trimer interface [polypeptide binding]; other site 400667000992 active site 400667000993 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 400667000994 putative nucleic acid binding region [nucleotide binding]; other site 400667000995 G-X-X-G motif; other site 400667000996 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 400667000997 RNA binding site [nucleotide binding]; other site 400667000998 domain interface; other site 400667000999 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 400667001000 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 400667001001 oligomer interface [polypeptide binding]; other site 400667001002 metal binding site [ion binding]; metal-binding site 400667001003 putative Cl binding site [ion binding]; other site 400667001004 aspartate ring; other site 400667001005 basic sphincter; other site 400667001006 hydrophobic gate; other site 400667001007 periplasmic entrance; other site 400667001008 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 400667001009 DnaJ domain; Region: DnaJ; pfam00226 400667001010 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 400667001011 substrate binding site [polypeptide binding]; other site 400667001012 dimer interface [polypeptide binding]; other site 400667001013 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667001014 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 400667001015 dimerization interface [polypeptide binding]; other site 400667001016 domain crossover interface; other site 400667001017 redox-dependent activation switch; other site 400667001018 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 400667001019 TrkA-N domain; Region: TrkA_N; pfam02254 400667001020 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 400667001021 primosomal protein N' Region: priA; TIGR00595 400667001022 ATP binding site [chemical binding]; other site 400667001023 putative Mg++ binding site [ion binding]; other site 400667001024 helicase superfamily c-terminal domain; Region: HELICc; smart00490 400667001025 ATP-binding site [chemical binding]; other site 400667001026 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400667001027 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400667001028 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 400667001029 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 400667001030 tRNA-binding protein; Provisional; Region: PRK10089 400667001031 putative tRNA-binding site [nucleotide binding]; other site 400667001032 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 400667001033 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 400667001034 putative active site [active] 400667001035 catalytic triad [active] 400667001036 putative dimer interface [polypeptide binding]; other site 400667001037 FOG: CBS domain [General function prediction only]; Region: COG0517 400667001038 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 400667001039 Transporter associated domain; Region: CorC_HlyC; smart01091 400667001040 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 400667001041 CPxP motif; other site 400667001042 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 400667001043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667001044 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 400667001045 glutamate racemase; Provisional; Region: PRK00865 400667001046 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 400667001047 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 400667001048 Ferrochelatase; Region: Ferrochelatase; pfam00762 400667001049 active site 400667001050 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 400667001051 active site 400667001052 N-terminal domain interface [polypeptide binding]; other site 400667001053 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 400667001054 Domain of unknown function (DUF329); Region: DUF329; pfam03884 400667001055 Putative methyltransferase; Region: Methyltransf_4; cl17290 400667001056 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 400667001057 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 400667001058 chromosome condensation membrane protein; Provisional; Region: PRK14196 400667001059 HopJ type III effector protein; Region: HopJ; pfam08888 400667001060 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 400667001061 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 400667001062 ABC1 family; Region: ABC1; pfam03109 400667001063 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667001064 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 400667001065 active site 400667001066 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667001067 active site 400667001068 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 400667001069 putative efflux protein, MATE family; Region: matE; TIGR00797 400667001070 cation binding site [ion binding]; other site 400667001071 Protein of unknown function, DUF606; Region: DUF606; pfam04657 400667001072 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 400667001073 FeS/SAM binding site; other site 400667001074 HemN C-terminal domain; Region: HemN_C; pfam06969 400667001075 short chain dehydrogenase; Provisional; Region: PRK12744 400667001076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667001077 NAD(P) binding site [chemical binding]; other site 400667001078 active site 400667001079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667001080 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 400667001081 putative effector binding pocket; other site 400667001082 putative dimerization interface [polypeptide binding]; other site 400667001083 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 400667001084 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667001085 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 400667001086 acyl-activating enzyme (AAE) consensus motif; other site 400667001087 putative AMP binding site [chemical binding]; other site 400667001088 putative active site [active] 400667001089 putative CoA binding site [chemical binding]; other site 400667001090 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 400667001091 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 400667001092 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 400667001093 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 400667001094 motif II; other site 400667001095 Predicted transcriptional regulator [Transcription]; Region: COG2378 400667001096 WYL domain; Region: WYL; pfam13280 400667001097 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400667001098 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 400667001099 putative dimer interface [polypeptide binding]; other site 400667001100 putative GSH binding site (G-site) [chemical binding]; other site 400667001101 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 400667001102 dimer interface [polypeptide binding]; other site 400667001103 N-terminal domain interface [polypeptide binding]; other site 400667001104 putative substrate binding pocket (H-site) [chemical binding]; other site 400667001105 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 400667001106 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 400667001107 dimerization interface [polypeptide binding]; other site 400667001108 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 400667001109 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 400667001110 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 400667001111 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 400667001112 heme binding site [chemical binding]; other site 400667001113 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 400667001114 heme binding site [chemical binding]; other site 400667001115 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 400667001116 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 400667001117 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 400667001118 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 400667001119 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 400667001120 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 400667001121 putative active site [active] 400667001122 Ap4A binding site [chemical binding]; other site 400667001123 nudix motif; other site 400667001124 putative metal binding site [ion binding]; other site 400667001125 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400667001126 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 400667001127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667001128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667001129 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 400667001130 dimerization interface [polypeptide binding]; other site 400667001131 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 400667001132 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 400667001133 substrate binding site [chemical binding]; other site 400667001134 ligand binding site [chemical binding]; other site 400667001135 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 400667001136 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 400667001137 substrate binding site [chemical binding]; other site 400667001138 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 400667001139 tartrate dehydrogenase; Region: TTC; TIGR02089 400667001140 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 400667001141 rRNA binding site [nucleotide binding]; other site 400667001142 predicted 30S ribosome binding site; other site 400667001143 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667001144 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667001145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667001146 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 400667001147 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 400667001148 dimerization interface 3.5A [polypeptide binding]; other site 400667001149 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 400667001150 homodimer interface [polypeptide binding]; other site 400667001151 active site 400667001152 FimV N-terminal domain; Region: FimV_core; TIGR03505 400667001153 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 400667001154 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 400667001155 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 400667001156 putative catalytic site [active] 400667001157 putative metal binding site [ion binding]; other site 400667001158 putative phosphate binding site [ion binding]; other site 400667001159 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 400667001160 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667001161 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 400667001162 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400667001163 putative ADP-binding pocket [chemical binding]; other site 400667001164 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 400667001165 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 400667001166 putative acyl-acceptor binding pocket; other site 400667001167 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667001168 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667001169 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 400667001170 ABC transporter; Region: ABC_tran_2; pfam12848 400667001171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667001172 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 400667001173 SlyX; Region: SlyX; pfam04102 400667001174 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 400667001175 putative NAD(P) binding site [chemical binding]; other site 400667001176 dimer interface [polypeptide binding]; other site 400667001177 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667001178 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667001179 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 400667001180 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 400667001181 active site 400667001182 metal binding site [ion binding]; metal-binding site 400667001183 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 400667001184 domain I; other site 400667001185 DNA binding groove [nucleotide binding] 400667001186 phosphate binding site [ion binding]; other site 400667001187 domain II; other site 400667001188 domain III; other site 400667001189 nucleotide binding site [chemical binding]; other site 400667001190 catalytic site [active] 400667001191 domain IV; other site 400667001192 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400667001193 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400667001194 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 400667001195 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 400667001196 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 400667001197 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 400667001198 Part of AAA domain; Region: AAA_19; pfam13245 400667001199 Family description; Region: UvrD_C_2; pfam13538 400667001200 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 400667001201 RNA recognition motif; Region: RRM; smart00360 400667001202 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 400667001203 TrkA-N domain; Region: TrkA_N; pfam02254 400667001204 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 400667001205 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 400667001206 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 400667001207 NAD(P) binding site [chemical binding]; other site 400667001208 catalytic residues [active] 400667001209 Bacterial transcriptional repressor; Region: TetR; pfam13972 400667001210 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 400667001211 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 400667001212 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 400667001213 putative active site [active] 400667001214 putative substrate binding site [chemical binding]; other site 400667001215 putative cosubstrate binding site; other site 400667001216 catalytic site [active] 400667001217 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 400667001218 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 400667001219 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 400667001220 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400667001221 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400667001222 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 400667001223 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 400667001224 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 400667001225 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 400667001226 NADP+ binding site [chemical binding]; other site 400667001227 folate binding site [chemical binding]; other site 400667001228 thymidylate synthase; Reviewed; Region: thyA; PRK01827 400667001229 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 400667001230 active site 400667001231 dimerization interface [polypeptide binding]; other site 400667001232 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 400667001233 NRDE protein; Region: NRDE; cl01315 400667001234 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 400667001235 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 400667001236 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 400667001237 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 400667001238 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 400667001239 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 400667001240 Membrane transport protein; Region: Mem_trans; cl09117 400667001241 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 400667001242 dimerization interface [polypeptide binding]; other site 400667001243 active site 400667001244 Sel1-like repeats; Region: SEL1; smart00671 400667001245 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400667001246 Sel1-like repeats; Region: SEL1; smart00671 400667001247 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 400667001248 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 400667001249 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 400667001250 2-isopropylmalate synthase; Validated; Region: PRK03739 400667001251 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 400667001252 active site 400667001253 catalytic residues [active] 400667001254 metal binding site [ion binding]; metal-binding site 400667001255 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 400667001256 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 400667001257 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 400667001258 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 400667001259 N-terminal plug; other site 400667001260 ligand-binding site [chemical binding]; other site 400667001261 trigger factor; Provisional; Region: tig; PRK01490 400667001262 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400667001263 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 400667001264 Clp protease; Region: CLP_protease; pfam00574 400667001265 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 400667001266 oligomer interface [polypeptide binding]; other site 400667001267 active site residues [active] 400667001268 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 400667001269 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 400667001270 Walker A motif; other site 400667001271 ATP binding site [chemical binding]; other site 400667001272 Walker B motif; other site 400667001273 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 400667001274 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 400667001275 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 400667001276 Fumarase C-terminus; Region: Fumerase_C; pfam05683 400667001277 phosphate acetyltransferase; Reviewed; Region: PRK05632 400667001278 DRTGG domain; Region: DRTGG; pfam07085 400667001279 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 400667001280 propionate/acetate kinase; Provisional; Region: PRK12379 400667001281 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 400667001282 nucleotide binding site [chemical binding]; other site 400667001283 Butyrate kinase [Energy production and conversion]; Region: COG3426 400667001284 phosphogluconate dehydratase; Validated; Region: PRK09054 400667001285 6-phosphogluconate dehydratase; Region: edd; TIGR01196 400667001286 Entner-Doudoroff aldolase; Region: eda; TIGR01182 400667001287 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 400667001288 active site 400667001289 intersubunit interface [polypeptide binding]; other site 400667001290 catalytic residue [active] 400667001291 GntP family permease; Region: GntP_permease; pfam02447 400667001292 fructuronate transporter; Provisional; Region: PRK10034; cl15264 400667001293 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 400667001294 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 400667001295 putative catalytic cysteine [active] 400667001296 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667001297 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 400667001298 beta-hexosaminidase; Provisional; Region: PRK05337 400667001299 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 400667001300 carboxy-terminal protease; Provisional; Region: PRK11186 400667001301 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 400667001302 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 400667001303 protein binding site [polypeptide binding]; other site 400667001304 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 400667001305 Catalytic dyad [active] 400667001306 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 400667001307 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 400667001308 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 400667001309 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 400667001310 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 400667001311 active site 400667001312 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 400667001313 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 400667001314 active site 400667001315 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 400667001316 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 400667001317 FeS/SAM binding site; other site 400667001318 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 400667001319 TPR motif; other site 400667001320 Tetratricopeptide repeat; Region: TPR_12; pfam13424 400667001321 binding surface 400667001322 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 400667001323 binding surface 400667001324 TPR motif; other site 400667001325 Helix-turn-helix domain; Region: HTH_25; pfam13413 400667001326 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 400667001327 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 400667001328 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 400667001329 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 400667001330 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 400667001331 dimer interface [polypeptide binding]; other site 400667001332 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 400667001333 motif 1; other site 400667001334 active site 400667001335 motif 2; other site 400667001336 motif 3; other site 400667001337 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 400667001338 anticodon binding site; other site 400667001339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 400667001340 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 400667001341 TPR motif; other site 400667001342 binding surface 400667001343 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 400667001344 PQQ-like domain; Region: PQQ_2; pfam13360 400667001345 Trp docking motif [polypeptide binding]; other site 400667001346 active site 400667001347 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 400667001348 Switch II region; other site 400667001349 G4 box; other site 400667001350 G5 box; other site 400667001351 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 400667001352 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 400667001353 G1 box; other site 400667001354 GTP/Mg2+ binding site [chemical binding]; other site 400667001355 Switch I region; other site 400667001356 G2 box; other site 400667001357 G3 box; other site 400667001358 Switch II region; other site 400667001359 G4 box; other site 400667001360 G5 box; other site 400667001361 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 400667001362 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400667001363 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 400667001364 putative acyl-acceptor binding pocket; other site 400667001365 Phosphopantetheine attachment site; Region: PP-binding; cl09936 400667001366 acyl carrier protein; Provisional; Region: PRK05350 400667001367 Predicted membrane protein [Function unknown]; Region: COG4648 400667001368 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667001369 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 400667001370 acyl-activating enzyme (AAE) consensus motif; other site 400667001371 active site 400667001372 AMP binding site [chemical binding]; other site 400667001373 CoA binding site [chemical binding]; other site 400667001374 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 400667001375 active site 2 [active] 400667001376 active site 1 [active] 400667001377 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 400667001378 DXD motif; other site 400667001379 Putative Catalytic site; other site 400667001380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 400667001381 putative acyl-acceptor binding pocket; other site 400667001382 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 400667001383 active sites [active] 400667001384 tetramer interface [polypeptide binding]; other site 400667001385 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 400667001386 active site 400667001387 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 400667001388 Predicted exporter [General function prediction only]; Region: COG4258 400667001389 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 400667001390 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 400667001391 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 400667001392 dimer interface [polypeptide binding]; other site 400667001393 active site 400667001394 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 400667001395 active site 2 [active] 400667001396 active site 1 [active] 400667001397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667001398 NAD(P) binding site [chemical binding]; other site 400667001399 active site 400667001400 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 400667001401 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 400667001402 dimer interface [polypeptide binding]; other site 400667001403 active site 400667001404 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400667001405 preprotein translocase subunit SecB; Validated; Region: PRK05751 400667001406 SecA binding site; other site 400667001407 Preprotein binding site; other site 400667001408 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 400667001409 GSH binding site [chemical binding]; other site 400667001410 catalytic residues [active] 400667001411 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 400667001412 active site residue [active] 400667001413 ribosome small subunit-dependent GTPase A; Region: TIGR00157 400667001414 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 400667001415 GTPase/Zn-binding domain interface [polypeptide binding]; other site 400667001416 GTP/Mg2+ binding site [chemical binding]; other site 400667001417 G4 box; other site 400667001418 G5 box; other site 400667001419 G1 box; other site 400667001420 Switch I region; other site 400667001421 G2 box; other site 400667001422 G3 box; other site 400667001423 Switch II region; other site 400667001424 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 400667001425 catalytic site [active] 400667001426 putative active site [active] 400667001427 putative substrate binding site [chemical binding]; other site 400667001428 dimer interface [polypeptide binding]; other site 400667001429 Bax inhibitor 1 like; Region: BaxI_1; cl17691 400667001430 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 400667001431 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 400667001432 NAD binding site [chemical binding]; other site 400667001433 homotetramer interface [polypeptide binding]; other site 400667001434 homodimer interface [polypeptide binding]; other site 400667001435 substrate binding site [chemical binding]; other site 400667001436 active site 400667001437 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 400667001438 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 400667001439 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 400667001440 Q-loop/lid; other site 400667001441 ABC transporter signature motif; other site 400667001442 Walker B; other site 400667001443 D-loop; other site 400667001444 H-loop/switch region; other site 400667001445 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 400667001446 FtsX-like permease family; Region: FtsX; pfam02687 400667001447 macrolide transporter subunit MacA; Provisional; Region: PRK11578 400667001448 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667001449 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667001450 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 400667001451 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 400667001452 Lipopolysaccharide-assembly; Region: LptE; pfam04390 400667001453 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400667001454 active site 400667001455 KMSKS motif; other site 400667001456 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 400667001457 tRNA binding surface [nucleotide binding]; other site 400667001458 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 400667001459 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 400667001460 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 400667001461 HIGH motif; other site 400667001462 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 400667001463 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400667001464 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 400667001465 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 400667001466 TPP binding site [chemical binding]; other site 400667001467 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 400667001468 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 400667001469 TPP-binding site [chemical binding]; other site 400667001470 dimer interface [polypeptide binding]; other site 400667001471 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 400667001472 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 400667001473 dimer interface [polypeptide binding]; other site 400667001474 putative valine binding site [chemical binding]; other site 400667001475 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 400667001476 ketol-acid reductoisomerase; Provisional; Region: PRK05479 400667001477 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 400667001478 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 400667001479 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 400667001480 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667001481 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667001482 metal binding site [ion binding]; metal-binding site 400667001483 active site 400667001484 I-site; other site 400667001485 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 400667001486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667001487 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667001488 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 400667001489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 400667001490 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 400667001491 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 400667001492 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 400667001493 GAD-like domain; Region: GAD-like; pfam08887 400667001494 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 400667001495 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 400667001496 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 400667001497 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 400667001498 putative GEF interaction site [polypeptide binding]; other site 400667001499 Switch I region; other site 400667001500 G2 box; other site 400667001501 G3 box; other site 400667001502 Switch II region; other site 400667001503 GTP/Mg2+ binding site [chemical binding]; other site 400667001504 G4 box; other site 400667001505 G5 box; other site 400667001506 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 400667001507 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 400667001508 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 400667001509 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 400667001510 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 400667001511 active site 400667001512 aconitate hydratase; Provisional; Region: acnA; PRK12881 400667001513 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 400667001514 substrate binding site [chemical binding]; other site 400667001515 ligand binding site [chemical binding]; other site 400667001516 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 400667001517 substrate binding site [chemical binding]; other site 400667001518 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 400667001519 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 400667001520 putative ATP binding site [chemical binding]; other site 400667001521 putative substrate interface [chemical binding]; other site 400667001522 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 400667001523 dimerization interface [polypeptide binding]; other site 400667001524 substrate binding pocket [chemical binding]; other site 400667001525 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 400667001526 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 400667001527 FMN binding site [chemical binding]; other site 400667001528 active site 400667001529 catalytic residues [active] 400667001530 substrate binding site [chemical binding]; other site 400667001531 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667001532 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400667001533 putative substrate translocation pore; other site 400667001534 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 400667001535 homotrimer interaction site [polypeptide binding]; other site 400667001536 putative active site [active] 400667001537 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400667001538 EamA-like transporter family; Region: EamA; pfam00892 400667001539 EamA-like transporter family; Region: EamA; pfam00892 400667001540 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 400667001541 ligand binding site [chemical binding]; other site 400667001542 NAD(P) binding site [chemical binding]; other site 400667001543 trimer interface B [polypeptide binding]; other site 400667001544 homodimer interface [polypeptide binding]; other site 400667001545 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; pfam01262 400667001546 trimer interface A [polypeptide binding]; other site 400667001547 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 400667001548 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 400667001549 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 400667001550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667001551 NAD(P) binding site [chemical binding]; other site 400667001552 active site 400667001553 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 400667001554 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 400667001555 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 400667001556 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400667001557 enoyl-CoA hydratase; Provisional; Region: PRK07509 400667001558 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 400667001559 substrate binding site [chemical binding]; other site 400667001560 oxyanion hole (OAH) forming residues; other site 400667001561 trimer interface [polypeptide binding]; other site 400667001562 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 400667001563 dimer interface [polypeptide binding]; other site 400667001564 phosphorylation site [posttranslational modification] 400667001565 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 400667001566 ATP binding site [chemical binding]; other site 400667001567 Mg2+ binding site [ion binding]; other site 400667001568 G-X-G motif; other site 400667001569 Response regulator receiver domain; Region: Response_reg; pfam00072 400667001570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667001571 active site 400667001572 phosphorylation site [posttranslational modification] 400667001573 intermolecular recognition site; other site 400667001574 dimerization interface [polypeptide binding]; other site 400667001575 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 400667001576 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 400667001577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667001578 dimer interface [polypeptide binding]; other site 400667001579 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 400667001580 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 400667001581 active site 400667001582 substrate binding site [chemical binding]; other site 400667001583 catalytic site [active] 400667001584 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 400667001585 HD domain; Region: HD_4; pfam13328 400667001586 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 400667001587 synthetase active site [active] 400667001588 NTP binding site [chemical binding]; other site 400667001589 metal binding site [ion binding]; metal-binding site 400667001590 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 400667001591 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 400667001592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667001593 NAD(P) binding site [chemical binding]; other site 400667001594 active site 400667001595 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 400667001596 homodimer interface [polypeptide binding]; other site 400667001597 metal binding site [ion binding]; metal-binding site 400667001598 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 400667001599 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 400667001600 homodimer interface [polypeptide binding]; other site 400667001601 active site 400667001602 putative chemical substrate binding site [chemical binding]; other site 400667001603 metal binding site [ion binding]; metal-binding site 400667001604 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 400667001605 Helix-hairpin-helix motif; Region: HHH; pfam00633 400667001606 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 400667001607 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 400667001608 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 400667001609 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 400667001610 catalytic center binding site [active] 400667001611 ATP binding site [chemical binding]; other site 400667001612 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 400667001613 oligomerization interface [polypeptide binding]; other site 400667001614 metal binding site [ion binding]; metal-binding site 400667001615 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 400667001616 Pantoate-beta-alanine ligase; Region: PanC; cd00560 400667001617 active site 400667001618 ATP-binding site [chemical binding]; other site 400667001619 pantoate-binding site; other site 400667001620 HXXH motif; other site 400667001621 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 400667001622 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 400667001623 dimerization domain swap beta strand [polypeptide binding]; other site 400667001624 regulatory protein interface [polypeptide binding]; other site 400667001625 active site 400667001626 regulatory phosphorylation site [posttranslational modification]; other site 400667001627 hypothetical protein; Provisional; Region: PRK05255 400667001628 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 400667001629 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667001630 acyl-activating enzyme (AAE) consensus motif; other site 400667001631 putative active site [active] 400667001632 AMP binding site [chemical binding]; other site 400667001633 putative CoA binding site [chemical binding]; other site 400667001634 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 400667001635 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 400667001636 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 400667001637 active site 400667001638 dimer interface [polypeptide binding]; other site 400667001639 motif 1; other site 400667001640 motif 2; other site 400667001641 motif 3; other site 400667001642 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 400667001643 anticodon binding site; other site 400667001644 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 400667001645 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 400667001646 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 400667001647 dimer interface [polypeptide binding]; other site 400667001648 GSH binding site (G-site) [chemical binding]; other site 400667001649 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 400667001650 N-terminal domain interface [polypeptide binding]; other site 400667001651 putative dimer interface [polypeptide binding]; other site 400667001652 active site 400667001653 Predicted membrane protein [Function unknown]; Region: COG1238 400667001654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667001655 putative substrate translocation pore; other site 400667001656 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 400667001657 23S rRNA binding site [nucleotide binding]; other site 400667001658 L21 binding site [polypeptide binding]; other site 400667001659 L13 binding site [polypeptide binding]; other site 400667001660 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 400667001661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667001662 Coenzyme A binding pocket [chemical binding]; other site 400667001663 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 400667001664 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 400667001665 dimer interface [polypeptide binding]; other site 400667001666 motif 1; other site 400667001667 active site 400667001668 motif 2; other site 400667001669 motif 3; other site 400667001670 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 400667001671 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 400667001672 putative tRNA-binding site [nucleotide binding]; other site 400667001673 B3/4 domain; Region: B3_4; pfam03483 400667001674 tRNA synthetase B5 domain; Region: B5; smart00874 400667001675 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 400667001676 dimer interface [polypeptide binding]; other site 400667001677 motif 1; other site 400667001678 motif 3; other site 400667001679 motif 2; other site 400667001680 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 400667001681 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 400667001682 IHF dimer interface [polypeptide binding]; other site 400667001683 IHF - DNA interface [nucleotide binding]; other site 400667001684 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 400667001685 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 400667001686 catalytic residues [active] 400667001687 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 400667001688 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 400667001689 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 400667001690 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 400667001691 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 400667001692 TilS substrate binding domain; Region: TilS; pfam09179 400667001693 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 400667001694 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 400667001695 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 400667001696 YGGT family; Region: YGGT; pfam02325 400667001697 DNA polymerase I; Provisional; Region: PRK05755 400667001698 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 400667001699 active site 400667001700 putative 5' ssDNA interaction site; other site 400667001701 metal binding site 3; metal-binding site 400667001702 metal binding site 1 [ion binding]; metal-binding site 400667001703 metal binding site 2 [ion binding]; metal-binding site 400667001704 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 400667001705 putative DNA binding site [nucleotide binding]; other site 400667001706 putative metal binding site [ion binding]; other site 400667001707 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 400667001708 active site 400667001709 catalytic site [active] 400667001710 substrate binding site [chemical binding]; other site 400667001711 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 400667001712 active site 400667001713 DNA binding site [nucleotide binding] 400667001714 catalytic site [active] 400667001715 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 400667001716 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400667001717 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400667001718 Type II/IV secretion system protein; Region: T2SE; pfam00437 400667001719 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 400667001720 Walker A motif; other site 400667001721 ATP binding site [chemical binding]; other site 400667001722 Walker B motif; other site 400667001723 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 400667001724 MarR family; Region: MarR; pfam01047 400667001725 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 400667001726 putative active site [active] 400667001727 catalytic triad [active] 400667001728 dimer interface [polypeptide binding]; other site 400667001729 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 400667001730 anti sigma factor interaction site; other site 400667001731 regulatory phosphorylation site [posttranslational modification]; other site 400667001732 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 400667001733 VacJ like lipoprotein; Region: VacJ; cl01073 400667001734 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 400667001735 Peptidase family M48; Region: Peptidase_M48; cl12018 400667001736 HNH endonuclease; Region: HNH_5; pfam14279 400667001737 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 400667001738 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 400667001739 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 400667001740 S-adenosylmethionine binding site [chemical binding]; other site 400667001741 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 400667001742 Helicase_C-like; Region: Helicase_C_4; pfam13871 400667001743 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 400667001744 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 400667001745 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 400667001746 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400667001747 Peptidase family M23; Region: Peptidase_M23; pfam01551 400667001748 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 400667001749 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 400667001750 Catalytic site [active] 400667001751 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 400667001752 DNA binding site [nucleotide binding] 400667001753 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 400667001754 Abi-like protein; Region: Abi_2; cl01988 400667001755 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 400667001756 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 400667001757 Magnesium ion binding site [ion binding]; other site 400667001758 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667001759 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 400667001760 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 400667001761 putative protofilament interface [polypeptide binding]; other site 400667001762 nucleotide binding site [chemical binding]; other site 400667001763 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 400667001764 Walker A motif; other site 400667001765 ATP binding site [chemical binding]; other site 400667001766 Walker B motif; other site 400667001767 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 400667001768 AAA-like domain; Region: AAA_10; pfam12846 400667001769 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 400667001770 Staphylococcal nuclease homologues; Region: SNc; smart00318 400667001771 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 400667001772 Catalytic site; other site 400667001773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 400667001774 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 400667001775 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667001776 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 400667001777 active site 400667001778 metal binding site [ion binding]; metal-binding site 400667001779 DNA topoisomerase; Region: Topoisom_bac; pfam01131 400667001780 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; cl11986 400667001781 domain I; other site 400667001782 DNA binding groove [nucleotide binding] 400667001783 phosphate binding site [ion binding]; other site 400667001784 domain II; other site 400667001785 domain III; other site 400667001786 nucleotide binding site [chemical binding]; other site 400667001787 catalytic site [active] 400667001788 domain IV; other site 400667001789 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]; Region: RPB9; COG1594 400667001790 FeoA domain; Region: FeoA; pfam04023 400667001791 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 400667001792 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 400667001793 G1 box; other site 400667001794 GTP/Mg2+ binding site [chemical binding]; other site 400667001795 Switch I region; other site 400667001796 G2 box; other site 400667001797 G3 box; other site 400667001798 Switch II region; other site 400667001799 G4 box; other site 400667001800 G5 box; other site 400667001801 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 400667001802 Nucleoside recognition; Region: Gate; pfam07670 400667001803 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 400667001804 putative DNA binding site [nucleotide binding]; other site 400667001805 Sodium Bile acid symporter family; Region: SBF; cl17470 400667001806 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 400667001807 Integrase core domain; Region: rve; pfam00665 400667001808 Integrase core domain; Region: rve_3; pfam13683 400667001809 AAA domain; Region: AAA_22; pfam13401 400667001810 Bacterial TniB protein; Region: TniB; pfam05621 400667001811 integrase; Provisional; Region: PRK09692 400667001812 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 400667001813 active site 400667001814 Int/Topo IB signature motif; other site 400667001815 AAA domain; Region: AAA_25; pfam13481 400667001816 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 400667001817 Walker A motif; other site 400667001818 NTP binding site [chemical binding]; other site 400667001819 hexamer interface [polypeptide binding]; other site 400667001820 Walker B motif; other site 400667001821 Replication protein C (RepC); Region: RepC; pfam06504 400667001822 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 400667001823 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 400667001824 Toxin of toxin-antitoxin type 1 system; Region: plasmid_Toxin; pfam12703 400667001825 Sodium Bile acid symporter family; Region: SBF; cl17470 400667001826 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 400667001827 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 400667001828 Low molecular weight phosphatase family; Region: LMWPc; cl00105 400667001829 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 400667001830 catalytic residues [active] 400667001831 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 400667001832 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 400667001833 Putative transposase; Region: Y2_Tnp; pfam04986 400667001834 Putative transposase; Region: Y2_Tnp; pfam04986 400667001835 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 400667001836 substrate binding pocket [chemical binding]; other site 400667001837 dimer interface [polypeptide binding]; other site 400667001838 inhibitor binding site; inhibition site 400667001839 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 400667001840 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 400667001841 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 400667001842 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 400667001843 30S subunit binding site; other site 400667001844 BolA-like protein; Region: BolA; cl00386 400667001845 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 400667001846 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 400667001847 hinge; other site 400667001848 active site 400667001849 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 400667001850 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 400667001851 histidinol dehydrogenase; Region: hisD; TIGR00069 400667001852 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 400667001853 dimerization interface [polypeptide binding]; other site 400667001854 NAD binding site [chemical binding]; other site 400667001855 product binding site; other site 400667001856 substrate binding site [chemical binding]; other site 400667001857 zinc binding site [ion binding]; other site 400667001858 catalytic residues [active] 400667001859 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 400667001860 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 400667001861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667001862 homodimer interface [polypeptide binding]; other site 400667001863 catalytic residue [active] 400667001864 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 400667001865 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 400667001866 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 400667001867 putative active site [active] 400667001868 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 400667001869 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 400667001870 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 400667001871 nudix motif; other site 400667001872 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 400667001873 putative active site [active] 400667001874 putative CoA binding site [chemical binding]; other site 400667001875 nudix motif; other site 400667001876 metal binding site [ion binding]; metal-binding site 400667001877 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 400667001878 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 400667001879 trimer interface [polypeptide binding]; other site 400667001880 putative metal binding site [ion binding]; other site 400667001881 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 400667001882 Glycoprotease family; Region: Peptidase_M22; pfam00814 400667001883 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 400667001884 Peptidase C13 family; Region: Peptidase_C13; cl02159 400667001885 Peptidase C13 family; Region: Peptidase_C13; cl02159 400667001886 S-formylglutathione hydrolase; Region: PLN02442 400667001887 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 400667001888 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 400667001889 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 400667001890 hexamer interface [polypeptide binding]; other site 400667001891 metal binding site [ion binding]; metal-binding site 400667001892 substrate binding site [chemical binding]; other site 400667001893 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 400667001894 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 400667001895 active site 400667001896 motif I; other site 400667001897 motif II; other site 400667001898 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 400667001899 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 400667001900 Multicopper oxidase; Region: Cu-oxidase; pfam00394 400667001901 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 400667001902 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 400667001903 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 400667001904 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 400667001905 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 400667001906 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 400667001907 DNA binding site [nucleotide binding] 400667001908 active site 400667001909 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 400667001910 active site pocket [active] 400667001911 heterotetramer interface [polypeptide binding]; other site 400667001912 cleavage site 400667001913 quinolinate synthetase; Provisional; Region: PRK09375 400667001914 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 400667001915 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 400667001916 active site 400667001917 purine riboside binding site [chemical binding]; other site 400667001918 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 400667001919 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 400667001920 catalytic Zn binding site [ion binding]; other site 400667001921 putative NAD(P) binding site [chemical binding]; other site 400667001922 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 400667001923 dimerization interface [polypeptide binding]; other site 400667001924 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667001925 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 400667001926 FAD binding site [chemical binding]; other site 400667001927 substrate binding pocket [chemical binding]; other site 400667001928 catalytic base [active] 400667001929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667001930 benzoate transport; Region: 2A0115; TIGR00895 400667001931 putative substrate translocation pore; other site 400667001932 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 400667001933 formyl-CoA transferase; Region: oxalate_frc; TIGR03253 400667001934 CoA-transferase family III; Region: CoA_transf_3; pfam02515 400667001935 tricarballylate utilization protein B; Provisional; Region: PRK15033 400667001936 tricarballylate dehydrogenase; Validated; Region: PRK08274 400667001937 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 400667001938 putative dimerization interface [polypeptide binding]; other site 400667001939 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400667001940 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400667001941 metabolite-proton symporter; Region: 2A0106; TIGR00883 400667001942 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667001943 putative substrate translocation pore; other site 400667001944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667001945 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 400667001946 putative dimerization interface [polypeptide binding]; other site 400667001947 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 400667001948 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 400667001949 amidohydrolase; Region: amidohydrolases; TIGR01891 400667001950 metal binding site [ion binding]; metal-binding site 400667001951 putative dimer interface [polypeptide binding]; other site 400667001952 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667001953 SurA N-terminal domain; Region: SurA_N; pfam09312 400667001954 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667001955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667001956 Fatty acid desaturase; Region: FA_desaturase; pfam00487 400667001957 LysE type translocator; Region: LysE; cl00565 400667001958 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 400667001959 dimerization interface [polypeptide binding]; other site 400667001960 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 400667001961 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 400667001962 THF binding site; other site 400667001963 substrate binding site [chemical binding]; other site 400667001964 zinc-binding site [ion binding]; other site 400667001965 Flavin Reductases; Region: FlaRed; cl00801 400667001966 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667001967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667001968 Restriction endonuclease; Region: Mrr_cat; pfam04471 400667001969 Domain of unknown function (DUF955); Region: DUF955; pfam06114 400667001970 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 400667001971 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 400667001972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667001973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667001974 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 400667001975 dimer interface [polypeptide binding]; other site 400667001976 putative radical transfer pathway; other site 400667001977 diiron center [ion binding]; other site 400667001978 tyrosyl radical; other site 400667001979 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 400667001980 ATP cone domain; Region: ATP-cone; pfam03477 400667001981 Class I ribonucleotide reductase; Region: RNR_I; cd01679 400667001982 active site 400667001983 dimer interface [polypeptide binding]; other site 400667001984 catalytic residues [active] 400667001985 effector binding site; other site 400667001986 R2 peptide binding site; other site 400667001987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667001988 intermolecular recognition site; other site 400667001989 active site 400667001990 dimerization interface [polypeptide binding]; other site 400667001991 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 400667001992 DNA binding site [nucleotide binding] 400667001993 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 400667001994 dimerization interface [polypeptide binding]; other site 400667001995 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 400667001996 dimer interface [polypeptide binding]; other site 400667001997 phosphorylation site [posttranslational modification] 400667001998 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 400667001999 ATP binding site [chemical binding]; other site 400667002000 Mg2+ binding site [ion binding]; other site 400667002001 G-X-G motif; other site 400667002002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667002003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667002004 metal binding site [ion binding]; metal-binding site 400667002005 active site 400667002006 I-site; other site 400667002007 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 400667002008 NADH dehydrogenase subunit B; Validated; Region: PRK06411 400667002009 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 400667002010 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 400667002011 NADH dehydrogenase subunit D; Validated; Region: PRK06075 400667002012 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 400667002013 putative dimer interface [polypeptide binding]; other site 400667002014 [2Fe-2S] cluster binding site [ion binding]; other site 400667002015 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 400667002016 SLBB domain; Region: SLBB; pfam10531 400667002017 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 400667002018 NADH dehydrogenase subunit G; Validated; Region: PRK08166 400667002019 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 400667002020 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 400667002021 [4Fe-4S] binding site [ion binding]; other site 400667002022 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 400667002023 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 400667002024 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 400667002025 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 400667002026 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 400667002027 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 400667002028 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 400667002029 proton-translocating NADH-quinone oxidoreductase, chain L; Region: NDH_I_L; TIGR01974 400667002030 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 400667002031 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400667002032 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 400667002033 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400667002034 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 400667002035 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400667002036 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667002037 active site 400667002038 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 400667002039 DNA-binding site [nucleotide binding]; DNA binding site 400667002040 RNA-binding motif; other site 400667002041 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 400667002042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667002043 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 400667002044 putative dimerization interface [polypeptide binding]; other site 400667002045 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 400667002046 FAD binding pocket [chemical binding]; other site 400667002047 FAD binding motif [chemical binding]; other site 400667002048 phosphate binding motif [ion binding]; other site 400667002049 beta-alpha-beta structure motif; other site 400667002050 NAD binding pocket [chemical binding]; other site 400667002051 Conserved TM helix; Region: TM_helix; pfam05552 400667002052 Conserved TM helix; Region: TM_helix; pfam05552 400667002053 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400667002054 Conserved TM helix; Region: TM_helix; pfam05552 400667002055 Conserved TM helix; Region: TM_helix; pfam05552 400667002056 HI0933-like protein; Region: HI0933_like; pfam03486 400667002057 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 400667002058 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667002059 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 400667002060 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667002061 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667002062 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667002063 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667002065 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667002066 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 400667002067 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 400667002068 HIGH motif; other site 400667002069 active site 400667002070 KMSKS motif; other site 400667002071 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 400667002072 tRNA binding surface [nucleotide binding]; other site 400667002073 anticodon binding site; other site 400667002074 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 400667002075 dimer interface [polypeptide binding]; other site 400667002076 putative tRNA-binding site [nucleotide binding]; other site 400667002077 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 400667002078 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 400667002079 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 400667002080 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 400667002081 LysE type translocator; Region: LysE; cl00565 400667002082 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 400667002083 trimer interface [polypeptide binding]; other site 400667002084 active site 400667002085 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 400667002086 FMN binding site [chemical binding]; other site 400667002087 active site 400667002088 catalytic residues [active] 400667002089 substrate binding site [chemical binding]; other site 400667002090 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 400667002091 Type III pantothenate kinase; Region: Pan_kinase; cl17198 400667002092 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 400667002093 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 400667002094 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 400667002095 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400667002096 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400667002097 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 400667002098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667002099 Q-loop/lid; other site 400667002100 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 400667002101 ABC transporter signature motif; other site 400667002102 Walker B; other site 400667002103 D-loop; other site 400667002104 H-loop/switch region; other site 400667002105 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 400667002106 FtsZ protein binding site [polypeptide binding]; other site 400667002107 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 400667002108 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 400667002109 nucleotide binding pocket [chemical binding]; other site 400667002110 K-X-D-G motif; other site 400667002111 catalytic site [active] 400667002112 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 400667002113 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 400667002114 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 400667002115 Dimer interface [polypeptide binding]; other site 400667002116 BRCT sequence motif; other site 400667002117 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 400667002118 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 400667002119 heme binding site [chemical binding]; other site 400667002120 ferroxidase pore; other site 400667002121 ferroxidase diiron center [ion binding]; other site 400667002122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002123 putative substrate translocation pore; other site 400667002124 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 400667002125 active site 400667002126 homotetramer interface [polypeptide binding]; other site 400667002127 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 400667002128 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 400667002129 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 400667002130 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 400667002131 inhibitor-cofactor binding pocket; inhibition site 400667002132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667002133 catalytic residue [active] 400667002134 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 400667002135 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 400667002136 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667002137 catalytic residue [active] 400667002138 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 400667002139 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 400667002140 S-adenosylmethionine binding site [chemical binding]; other site 400667002141 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 400667002142 AAA domain; Region: AAA_26; pfam13500 400667002143 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 400667002144 pseudouridine synthase; Region: TIGR00093 400667002145 probable active site [active] 400667002146 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 400667002147 ScpA/B protein; Region: ScpA_ScpB; cl00598 400667002148 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 400667002149 Protein of unknown function, DUF462; Region: DUF462; pfam04315 400667002150 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 400667002151 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 400667002152 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 400667002153 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 400667002154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667002155 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 400667002156 NAD(P) binding site [chemical binding]; other site 400667002157 active site 400667002158 acyl carrier protein; Provisional; Region: acpP; PRK00982 400667002159 BON domain; Region: BON; pfam04972 400667002160 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 400667002161 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002162 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 400667002163 ATP binding site [chemical binding]; other site 400667002164 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 400667002165 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 400667002166 motif II; other site 400667002167 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 400667002168 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 400667002169 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 400667002170 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cl00540 400667002171 tetramerization interface [polypeptide binding]; other site 400667002172 peptidyl-tRNA hydrolase; Provisional; Region: PRK05426 400667002173 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; cl00352 400667002174 catalytic residue [active] 400667002175 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 400667002176 5S rRNA interface [nucleotide binding]; other site 400667002177 CTC domain interface [polypeptide binding]; other site 400667002178 L16 interface [polypeptide binding]; other site 400667002179 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 400667002180 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 400667002181 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667002182 active site 400667002183 similar to tRNA-Gln 400667002184 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 400667002185 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 400667002186 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 400667002187 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 400667002188 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 400667002189 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 400667002190 binding surface 400667002191 TPR motif; other site 400667002192 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 400667002193 binding surface 400667002194 TPR motif; other site 400667002195 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 400667002196 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 400667002197 tRNA; other site 400667002198 putative tRNA binding site [nucleotide binding]; other site 400667002199 putative NADP binding site [chemical binding]; other site 400667002200 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 400667002201 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 400667002202 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 400667002203 active site 400667002204 metal binding site [ion binding]; metal-binding site 400667002205 interdomain interaction site; other site 400667002206 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 400667002207 CHC2 zinc finger; Region: zf-CHC2; cl17510 400667002208 Outer membrane lipoprotein; Region: YfiO; pfam13525 400667002209 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 400667002210 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 400667002211 RNA binding surface [nucleotide binding]; other site 400667002212 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400667002213 active site 400667002214 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 400667002215 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 400667002216 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 400667002217 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667002218 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 400667002219 SmpB-tmRNA interface; other site 400667002220 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 400667002221 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 400667002222 active site 400667002223 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_9; cd08479 400667002224 putative effector binding pocket; other site 400667002225 putative dimerization interface [polypeptide binding]; other site 400667002226 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 400667002227 putative transporter; Provisional; Region: PRK09950 400667002228 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 400667002229 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 400667002230 substrate binding pocket [chemical binding]; other site 400667002231 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400667002232 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 400667002233 [2Fe-2S] cluster binding site [ion binding]; other site 400667002234 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 400667002235 putative alpha subunit interface [polypeptide binding]; other site 400667002236 putative active site [active] 400667002237 putative substrate binding site [chemical binding]; other site 400667002238 Fe binding site [ion binding]; other site 400667002239 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400667002240 NAD(P) binding site [chemical binding]; other site 400667002241 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400667002242 catalytic residues [active] 400667002243 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400667002244 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 400667002245 FMN-binding pocket [chemical binding]; other site 400667002246 flavin binding motif; other site 400667002247 phosphate binding motif [ion binding]; other site 400667002248 beta-alpha-beta structure motif; other site 400667002249 NAD binding pocket [chemical binding]; other site 400667002250 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 400667002251 catalytic loop [active] 400667002252 iron binding site [ion binding]; other site 400667002253 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 400667002254 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 400667002255 active site 400667002256 catalytic triad [active] 400667002257 multimer interface [polypeptide binding]; other site 400667002258 protein interface 1 [polypeptide binding]; other site 400667002259 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 400667002260 Ligand Binding Site [chemical binding]; other site 400667002261 Pirin-related protein [General function prediction only]; Region: COG1741 400667002262 Pirin; Region: Pirin; pfam02678 400667002263 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 400667002264 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 400667002265 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 400667002266 dimer interface [polypeptide binding]; other site 400667002267 active site 400667002268 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 400667002269 EcsC protein family; Region: EcsC; pfam12787 400667002270 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 400667002271 S17 interaction site [polypeptide binding]; other site 400667002272 S8 interaction site; other site 400667002273 16S rRNA interaction site [nucleotide binding]; other site 400667002274 streptomycin interaction site [chemical binding]; other site 400667002275 23S rRNA interaction site [nucleotide binding]; other site 400667002276 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 400667002277 30S ribosomal protein S7; Validated; Region: PRK05302 400667002278 elongation factor G; Reviewed; Region: PRK00007 400667002279 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 400667002280 Switch I region; other site 400667002281 G2 box; other site 400667002282 putative GEF interaction site [polypeptide binding]; other site 400667002283 G3 box; other site 400667002284 Switch II region; other site 400667002285 GTP/Mg2+ binding site [chemical binding]; other site 400667002286 G4 box; other site 400667002287 G5 box; other site 400667002288 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 400667002289 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 400667002290 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 400667002291 elongation factor Tu; Reviewed; Region: PRK00049 400667002292 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 400667002293 G1 box; other site 400667002294 GEF interaction site [polypeptide binding]; other site 400667002295 GTP/Mg2+ binding site [chemical binding]; other site 400667002296 Switch I region; other site 400667002297 G2 box; other site 400667002298 G3 box; other site 400667002299 Switch II region; other site 400667002300 G4 box; other site 400667002301 G5 box; other site 400667002302 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 400667002303 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 400667002304 Antibiotic Binding Site [chemical binding]; other site 400667002305 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 400667002306 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667002307 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667002308 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 400667002309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667002310 Coenzyme A binding pocket [chemical binding]; other site 400667002311 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 400667002312 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 400667002313 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 400667002314 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 400667002315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667002316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667002317 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 400667002318 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 400667002319 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 400667002320 threonine efflux system; Provisional; Region: PRK10229 400667002321 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 400667002322 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 400667002323 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 400667002324 Switch II; other site 400667002325 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 400667002326 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400667002327 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 400667002328 putative acyl-acceptor binding pocket; other site 400667002329 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667002330 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667002331 ligand binding site [chemical binding]; other site 400667002332 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 400667002333 Family description; Region: UvrD_C_2; pfam13538 400667002334 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 400667002335 trimer interface [polypeptide binding]; other site 400667002336 active site 400667002337 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 400667002338 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 400667002339 active site 400667002340 substrate binding site [chemical binding]; other site 400667002341 metal binding site [ion binding]; metal-binding site 400667002342 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 400667002343 feedback inhibition sensing region; other site 400667002344 homohexameric interface [polypeptide binding]; other site 400667002345 nucleotide binding site [chemical binding]; other site 400667002346 N-acetyl-L-glutamate binding site [chemical binding]; other site 400667002347 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 400667002348 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 400667002349 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 400667002350 putative active site [active] 400667002351 putative dimer interface [polypeptide binding]; other site 400667002352 Hemerythrin; Region: Hemerythrin; cd12107 400667002353 Fe binding site [ion binding]; other site 400667002354 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 400667002355 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 400667002356 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 400667002357 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 400667002358 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 400667002359 metal binding site 2 [ion binding]; metal-binding site 400667002360 putative DNA binding helix; other site 400667002361 metal binding site 1 [ion binding]; metal-binding site 400667002362 dimer interface [polypeptide binding]; other site 400667002363 structural Zn2+ binding site [ion binding]; other site 400667002364 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 400667002365 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 400667002366 Walker A motif; other site 400667002367 ATP binding site [chemical binding]; other site 400667002368 Walker B motif; other site 400667002369 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 400667002370 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 400667002371 Walker A motif; other site 400667002372 ATP binding site [chemical binding]; other site 400667002373 Walker B motif; other site 400667002374 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 400667002375 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667002376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667002377 ABC transporter signature motif; other site 400667002378 Walker B; other site 400667002379 D-loop; other site 400667002380 H-loop/switch region; other site 400667002381 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 400667002382 active site 400667002383 metal binding site [ion binding]; metal-binding site 400667002384 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 400667002385 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 400667002386 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 400667002387 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 400667002388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667002389 NAD(P) binding site [chemical binding]; other site 400667002390 active site 400667002391 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400667002392 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 400667002393 dimer interface [polypeptide binding]; other site 400667002394 allosteric magnesium binding site [ion binding]; other site 400667002395 active site 400667002396 aspartate-rich active site metal binding site; other site 400667002397 Schiff base residues; other site 400667002398 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 400667002399 CoenzymeA binding site [chemical binding]; other site 400667002400 subunit interaction site [polypeptide binding]; other site 400667002401 PHB binding site; other site 400667002402 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 400667002403 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667002404 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667002405 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667002406 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002407 putative substrate translocation pore; other site 400667002408 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002409 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 400667002410 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 400667002411 Domain of unknown function (DUF955); Region: DUF955; cl01076 400667002412 Beta protein; Region: Beta_protein; pfam14350 400667002413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002414 benzoate transport; Region: 2A0115; TIGR00895 400667002415 putative substrate translocation pore; other site 400667002416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002417 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400667002418 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 400667002419 dimer interface [polypeptide binding]; other site 400667002420 catalytic residue [active] 400667002421 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 400667002422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667002423 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 400667002424 dimerization interface [polypeptide binding]; other site 400667002425 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 400667002426 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 400667002427 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667002428 PGAP1-like protein; Region: PGAP1; pfam07819 400667002429 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 400667002430 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 400667002431 malate:quinone oxidoreductase; Validated; Region: PRK05257 400667002432 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 400667002433 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 400667002434 choline dehydrogenase; Validated; Region: PRK02106 400667002435 choline dehydrogenase; Validated; Region: PRK02106 400667002436 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 400667002437 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 400667002438 tetrameric interface [polypeptide binding]; other site 400667002439 NAD binding site [chemical binding]; other site 400667002440 catalytic residues [active] 400667002441 transcriptional regulator BetI; Validated; Region: PRK00767 400667002442 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667002443 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 400667002444 BCCT family transporter; Region: BCCT; pfam02028 400667002445 BCCT family transporter; Region: BCCT; cl00569 400667002446 BCCT family transporter; Region: BCCT; cl00569 400667002447 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 400667002448 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 400667002449 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 400667002450 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 400667002451 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 400667002452 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667002453 YaeQ protein; Region: YaeQ; pfam07152 400667002454 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 400667002455 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400667002456 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 400667002457 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 400667002458 putative active site [active] 400667002459 putative metal binding site [ion binding]; other site 400667002460 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 400667002461 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 400667002462 DXD motif; other site 400667002463 PgaD-like protein; Region: PgaD; pfam13994 400667002464 enoyl-CoA hydratase; Region: PLN02600 400667002465 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 400667002466 substrate binding site [chemical binding]; other site 400667002467 oxyanion hole (OAH) forming residues; other site 400667002468 trimer interface [polypeptide binding]; other site 400667002469 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 400667002470 Transcriptional regulator [Transcription]; Region: IclR; COG1414 400667002471 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 400667002472 Bacterial transcriptional regulator; Region: IclR; pfam01614 400667002473 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 400667002474 [2Fe-2S] cluster binding site [ion binding]; other site 400667002475 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400667002476 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 400667002477 [2Fe-2S] cluster binding site [ion binding]; other site 400667002478 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 400667002479 hydrophobic ligand binding site; other site 400667002480 short chain dehydrogenase; Provisional; Region: PRK12939 400667002481 classical (c) SDRs; Region: SDR_c; cd05233 400667002482 NAD(P) binding site [chemical binding]; other site 400667002483 active site 400667002484 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 400667002485 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400667002486 putative active site [active] 400667002487 putative metal binding site [ion binding]; other site 400667002488 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 400667002489 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 400667002490 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 400667002491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002492 putative substrate translocation pore; other site 400667002493 Cupin domain; Region: Cupin_2; pfam07883 400667002494 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667002495 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 400667002496 short chain dehydrogenase; Provisional; Region: PRK07062 400667002497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667002498 NAD(P) binding site [chemical binding]; other site 400667002499 active site 400667002500 L-aspartate dehydrogenase; Provisional; Region: PRK13303 400667002501 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 400667002502 Domain of unknown function DUF108; Region: DUF108; pfam01958 400667002503 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 400667002504 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400667002505 NAD(P) binding site [chemical binding]; other site 400667002506 catalytic residues [active] 400667002507 hypothetical protein; Provisional; Region: PRK07064 400667002508 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 400667002509 PYR/PP interface [polypeptide binding]; other site 400667002510 dimer interface [polypeptide binding]; other site 400667002511 TPP binding site [chemical binding]; other site 400667002512 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 400667002513 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 400667002514 TPP-binding site [chemical binding]; other site 400667002515 metabolite-proton symporter; Region: 2A0106; TIGR00883 400667002516 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002517 putative substrate translocation pore; other site 400667002518 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 400667002519 active site 400667002520 catalytic residues [active] 400667002521 metal binding site [ion binding]; metal-binding site 400667002522 glutaminase; Provisional; Region: PRK00971 400667002523 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 400667002524 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400667002525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667002526 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002527 putative substrate translocation pore; other site 400667002528 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667002529 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 400667002530 active site 400667002531 catalytic residues [active] 400667002532 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 400667002533 dimerization interface [polypeptide binding]; other site 400667002534 substrate binding pocket [chemical binding]; other site 400667002535 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400667002536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667002537 NAD(P) binding site [chemical binding]; other site 400667002538 active site 400667002539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002540 D-galactonate transporter; Region: 2A0114; TIGR00893 400667002541 putative substrate translocation pore; other site 400667002542 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 400667002543 TPP-binding site [chemical binding]; other site 400667002544 dimer interface [polypeptide binding]; other site 400667002545 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 400667002546 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 400667002547 PYR/PP interface [polypeptide binding]; other site 400667002548 dimer interface [polypeptide binding]; other site 400667002549 TPP binding site [chemical binding]; other site 400667002550 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400667002551 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 400667002552 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 400667002553 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 400667002554 substrate binding pocket [chemical binding]; other site 400667002555 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 400667002556 B12 binding site [chemical binding]; other site 400667002557 cobalt ligand [ion binding]; other site 400667002558 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 400667002559 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 400667002560 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 400667002561 D-serine dehydratase; Provisional; Region: PRK02991 400667002562 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 400667002563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667002564 catalytic residue [active] 400667002565 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 400667002566 Uncharacterized conserved protein [Function unknown]; Region: COG1262 400667002567 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 400667002568 Sulfatase; Region: Sulfatase; pfam00884 400667002569 Rhomboid family; Region: Rhomboid; cl11446 400667002570 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 400667002571 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 400667002572 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 400667002573 N-terminal plug; other site 400667002574 ligand-binding site [chemical binding]; other site 400667002575 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 400667002576 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 400667002577 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667002578 nucleophilic elbow; other site 400667002579 catalytic triad; other site 400667002580 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_cladeC; cd03378 400667002581 active site clefts [active] 400667002582 zinc binding site [ion binding]; other site 400667002583 dimer interface [polypeptide binding]; other site 400667002584 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 400667002585 active site 400667002586 catalytic triad [active] 400667002587 oxyanion hole [active] 400667002588 switch loop; other site 400667002589 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 400667002590 Q-loop/lid; other site 400667002591 ABC transporter signature motif; other site 400667002592 Walker B; other site 400667002593 D-loop; other site 400667002594 H-loop/switch region; other site 400667002595 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 400667002596 FtsX-like permease family; Region: FtsX; pfam02687 400667002597 FtsX-like permease family; Region: FtsX; pfam02687 400667002598 Rhomboid family; Region: Rhomboid; pfam01694 400667002599 Transglycosylase; Region: Transgly; cl17702 400667002600 polyphosphate kinase; Provisional; Region: PRK05443 400667002601 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 400667002602 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 400667002603 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 400667002604 putative active site [active] 400667002605 catalytic site [active] 400667002606 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 400667002607 putative active site [active] 400667002608 catalytic site [active] 400667002609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 400667002610 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 400667002611 dimerization interface [polypeptide binding]; other site 400667002612 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667002613 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 400667002614 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 400667002615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667002616 Rubredoxin [Energy production and conversion]; Region: COG1773 400667002617 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 400667002618 iron binding site [ion binding]; other site 400667002619 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 400667002620 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 400667002621 putative anticodon binding site; other site 400667002622 dimer interface [polypeptide binding]; other site 400667002623 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 400667002624 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 400667002625 motif 1; other site 400667002626 active site 400667002627 motif 2; other site 400667002628 motif 3; other site 400667002629 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 400667002630 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 400667002631 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 400667002632 Active Sites [active] 400667002633 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 400667002634 GTP/Mg2+ binding site [chemical binding]; other site 400667002635 Switch I region; other site 400667002636 G2 box; other site 400667002637 CysD dimerization site [polypeptide binding]; other site 400667002638 putative GEF interaction site [polypeptide binding]; other site 400667002639 G3 box; other site 400667002640 Switch II region; other site 400667002641 G4 box; other site 400667002642 G5 box; other site 400667002643 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 400667002644 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 400667002645 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 400667002646 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 400667002647 Citrate transporter; Region: CitMHS; pfam03600 400667002648 Domain of unknown function DUF21; Region: DUF21; pfam01595 400667002649 FOG: CBS domain [General function prediction only]; Region: COG0517 400667002650 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 400667002651 Transporter associated domain; Region: CorC_HlyC; smart01091 400667002652 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 400667002653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667002654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667002655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667002656 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 400667002657 dimerization interface [polypeptide binding]; other site 400667002658 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 400667002659 tetramer interface [polypeptide binding]; other site 400667002660 active site 400667002661 Mg2+/Mn2+ binding site [ion binding]; other site 400667002662 isocitrate lyase; Region: PLN02892 400667002663 NlpE N-terminal domain; Region: NlpE; pfam04170 400667002664 UreD urease accessory protein; Region: UreD; pfam01774 400667002665 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 400667002666 alpha-gamma subunit interface [polypeptide binding]; other site 400667002667 beta-gamma subunit interface [polypeptide binding]; other site 400667002668 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 400667002669 alpha-beta subunit interface [polypeptide binding]; other site 400667002670 urease subunit alpha; Reviewed; Region: ureC; PRK13207 400667002671 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 400667002672 subunit interactions [polypeptide binding]; other site 400667002673 active site 400667002674 flap region; other site 400667002675 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 400667002676 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 400667002677 dimer interface [polypeptide binding]; other site 400667002678 catalytic residues [active] 400667002679 UreF; Region: UreF; pfam01730 400667002680 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 400667002681 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 400667002682 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 400667002683 S-adenosylmethionine binding site [chemical binding]; other site 400667002684 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 400667002685 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 400667002686 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 400667002687 adenylate kinase; Reviewed; Region: adk; PRK00279 400667002688 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 400667002689 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 400667002690 AMP-binding site [chemical binding]; other site 400667002691 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 400667002692 endonuclease III; Region: ENDO3c; smart00478 400667002693 minor groove reading motif; other site 400667002694 helix-hairpin-helix signature motif; other site 400667002695 substrate binding pocket [chemical binding]; other site 400667002696 active site 400667002697 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 400667002698 Ferredoxin [Energy production and conversion]; Region: COG1146 400667002699 4Fe-4S binding domain; Region: Fer4; pfam00037 400667002700 glutamate dehydrogenase; Provisional; Region: PRK09414 400667002701 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 400667002702 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 400667002703 NAD(P) binding site [chemical binding]; other site 400667002704 META domain; Region: META; pfam03724 400667002705 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 400667002706 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 400667002707 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 400667002708 putative active site [active] 400667002709 metal binding site [ion binding]; metal-binding site 400667002710 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 400667002711 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 400667002712 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400667002713 Walker A motif; other site 400667002714 ATP binding site [chemical binding]; other site 400667002715 Walker B motif; other site 400667002716 arginine finger; other site 400667002717 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 400667002718 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 400667002719 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 400667002720 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 400667002721 trimer interface [polypeptide binding]; other site 400667002722 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 400667002723 trimer interface [polypeptide binding]; other site 400667002724 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 400667002725 trimer interface [polypeptide binding]; other site 400667002726 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 400667002727 trimer interface [polypeptide binding]; other site 400667002728 Haemagglutinin; Region: HIM; pfam05662 400667002729 YadA-like C-terminal region; Region: YadA; pfam03895 400667002730 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667002731 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667002732 ligand binding site [chemical binding]; other site 400667002733 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 400667002734 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 400667002735 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 400667002736 Cell division protein ZapA; Region: ZapA; pfam05164 400667002737 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 400667002738 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 400667002739 proline aminopeptidase P II; Provisional; Region: PRK10879 400667002740 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 400667002741 active site 400667002742 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 400667002743 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400667002744 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400667002745 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400667002746 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 400667002747 Lysine efflux permease [General function prediction only]; Region: COG1279 400667002748 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 400667002749 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667002750 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 400667002751 dimerization interface [polypeptide binding]; other site 400667002752 Predicted methyltransferases [General function prediction only]; Region: COG0313 400667002753 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 400667002754 putative SAM binding site [chemical binding]; other site 400667002755 putative homodimer interface [polypeptide binding]; other site 400667002756 hypothetical protein; Provisional; Region: PRK14674 400667002757 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 400667002758 BON domain; Region: BON; pfam04972 400667002759 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 400667002760 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400667002761 substrate binding pocket [chemical binding]; other site 400667002762 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400667002763 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 400667002764 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 400667002765 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 400667002766 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 400667002767 putative NADH binding site [chemical binding]; other site 400667002768 putative active site [active] 400667002769 nudix motif; other site 400667002770 putative metal binding site [ion binding]; other site 400667002771 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 400667002772 RNA/DNA hybrid binding site [nucleotide binding]; other site 400667002773 active site 400667002774 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 400667002775 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 400667002776 active site 400667002777 catalytic site [active] 400667002778 substrate binding site [chemical binding]; other site 400667002779 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 400667002780 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 400667002781 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667002782 catalytic residue [active] 400667002783 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002784 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002785 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002786 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 400667002787 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002788 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002789 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 400667002790 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002791 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 400667002792 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002793 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667002794 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 400667002795 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 400667002796 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; cl01709 400667002797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667002798 dimer interface [polypeptide binding]; other site 400667002799 conserved gate region; other site 400667002800 ABC-ATPase subunit interface; other site 400667002801 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 400667002802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667002803 dimer interface [polypeptide binding]; other site 400667002804 conserved gate region; other site 400667002805 putative PBP binding loops; other site 400667002806 ABC-ATPase subunit interface; other site 400667002807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667002808 Walker A/P-loop; other site 400667002809 ATP binding site [chemical binding]; other site 400667002810 Q-loop/lid; other site 400667002811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667002812 H-loop/switch region; other site 400667002813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667002814 Walker A/P-loop; other site 400667002815 ATP binding site [chemical binding]; other site 400667002816 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400667002817 ABC transporter signature motif; other site 400667002818 Walker B; other site 400667002819 D-loop; other site 400667002820 H-loop/switch region; other site 400667002821 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400667002822 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 400667002823 putative active site [active] 400667002824 putative FMN binding site [chemical binding]; other site 400667002825 putative substrate binding site [chemical binding]; other site 400667002826 putative catalytic residue [active] 400667002827 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667002828 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 400667002829 N-terminal plug; other site 400667002830 ligand-binding site [chemical binding]; other site 400667002831 ribonuclease T; Provisional; Region: PRK05168 400667002832 active site 400667002833 substrate binding site [chemical binding]; other site 400667002834 catalytic site [active] 400667002835 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 400667002836 active site 400667002837 dimer interface [polypeptide binding]; other site 400667002838 substrate binding pocket [chemical binding]; other site 400667002839 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667002840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667002841 metal binding site [ion binding]; metal-binding site 400667002842 active site 400667002843 I-site; other site 400667002844 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 400667002845 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 400667002846 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 400667002847 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400667002848 active site 400667002849 FMN binding site [chemical binding]; other site 400667002850 2,4-decadienoyl-CoA binding site; other site 400667002851 catalytic residue [active] 400667002852 4Fe-4S cluster binding site [ion binding]; other site 400667002853 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 400667002854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667002855 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 400667002856 active site 400667002857 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 400667002858 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 400667002859 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 400667002860 Cadherin repeat-like domain; Region: CA_like; cl15786 400667002861 Ca2+ binding site [ion binding]; other site 400667002862 Cadherin repeat-like domain; Region: CA_like; cl15786 400667002863 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 400667002864 Ca2+ binding site [ion binding]; other site 400667002865 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 400667002866 homotrimer interaction site [polypeptide binding]; other site 400667002867 putative active site [active] 400667002868 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 400667002869 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667002870 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 400667002871 dimerization interface [polypeptide binding]; other site 400667002872 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 400667002873 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667002874 FAD binding domain; Region: FAD_binding_3; pfam01494 400667002875 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400667002876 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 400667002877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667002878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667002879 aromatic amino acid transporter; Provisional; Region: PRK10238 400667002880 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400667002881 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400667002882 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 400667002883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667002884 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400667002885 DNA-binding site [nucleotide binding]; DNA binding site 400667002886 FCD domain; Region: FCD; pfam07729 400667002887 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 400667002888 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 400667002889 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 400667002890 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 400667002891 tetrameric interface [polypeptide binding]; other site 400667002892 NAD binding site [chemical binding]; other site 400667002893 catalytic residues [active] 400667002894 substrate binding site [chemical binding]; other site 400667002895 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400667002896 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 400667002897 AsnC family; Region: AsnC_trans_reg; pfam01037 400667002898 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 400667002899 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 400667002900 catalytic residue [active] 400667002901 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 400667002902 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 400667002903 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 400667002904 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 400667002905 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 400667002906 NAD(P) binding site [chemical binding]; other site 400667002907 catalytic residues [active] 400667002908 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667002909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667002910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667002911 EamA-like transporter family; Region: EamA; pfam00892 400667002912 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400667002913 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 400667002914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002915 D-galactonate transporter; Region: 2A0114; TIGR00893 400667002916 putative substrate translocation pore; other site 400667002917 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 400667002918 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 400667002919 active site 400667002920 tetramer interface [polypeptide binding]; other site 400667002921 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 400667002922 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400667002923 putative active site [active] 400667002924 catalytic residue [active] 400667002925 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 400667002926 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400667002927 dimer interface [polypeptide binding]; other site 400667002928 NADP binding site [chemical binding]; other site 400667002929 catalytic residues [active] 400667002930 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400667002931 FCD domain; Region: FCD; pfam07729 400667002932 Tannase and feruloyl esterase; Region: Tannase; pfam07519 400667002933 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400667002934 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 400667002935 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 400667002936 CoenzymeA binding site [chemical binding]; other site 400667002937 subunit interaction site [polypeptide binding]; other site 400667002938 PHB binding site; other site 400667002939 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 400667002940 outer membrane porin, OprD family; Region: OprD; pfam03573 400667002941 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667002942 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667002943 active site 400667002944 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667002945 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 400667002946 acyl-activating enzyme (AAE) consensus motif; other site 400667002947 putative AMP binding site [chemical binding]; other site 400667002948 putative active site [active] 400667002949 putative CoA binding site [chemical binding]; other site 400667002950 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 400667002951 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400667002952 NAD(P) binding site [chemical binding]; other site 400667002953 catalytic residues [active] 400667002954 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 400667002955 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 400667002956 substrate binding site [chemical binding]; other site 400667002957 oxyanion hole (OAH) forming residues; other site 400667002958 trimer interface [polypeptide binding]; other site 400667002959 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 400667002960 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002961 putative substrate translocation pore; other site 400667002962 MarR family; Region: MarR_2; pfam12802 400667002963 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400667002964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667002965 DNA-binding site [nucleotide binding]; DNA binding site 400667002966 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400667002967 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 400667002968 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400667002969 FMN-binding pocket [chemical binding]; other site 400667002970 flavin binding motif; other site 400667002971 phosphate binding motif [ion binding]; other site 400667002972 beta-alpha-beta structure motif; other site 400667002973 NAD binding pocket [chemical binding]; other site 400667002974 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 400667002975 catalytic loop [active] 400667002976 iron binding site [ion binding]; other site 400667002977 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400667002978 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 400667002979 iron-sulfur cluster [ion binding]; other site 400667002980 [2Fe-2S] cluster binding site [ion binding]; other site 400667002981 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 400667002982 alpha subunit interface [polypeptide binding]; other site 400667002983 active site 400667002984 substrate binding site [chemical binding]; other site 400667002985 Fe binding site [ion binding]; other site 400667002986 benzoate transport; Region: 2A0115; TIGR00895 400667002987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667002988 putative substrate translocation pore; other site 400667002989 outer membrane porin, OprD family; Region: OprD; pfam03573 400667002990 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 400667002991 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 400667002992 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 400667002993 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 400667002994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667002995 NAD(P) binding site [chemical binding]; other site 400667002996 active site 400667002997 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667002998 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 400667002999 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667003000 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667003001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667003002 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 400667003003 Leucine carboxyl methyltransferase; Region: LCM; cl01306 400667003004 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667003005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667003006 classical (c) SDRs; Region: SDR_c; cd05233 400667003007 NAD(P) binding site [chemical binding]; other site 400667003008 active site 400667003009 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 400667003010 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667003011 Pirin-related protein [General function prediction only]; Region: COG1741 400667003012 Pirin; Region: Pirin; pfam02678 400667003013 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 400667003014 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667003015 classical (c) SDRs; Region: SDR_c; cd05233 400667003016 NAD(P) binding site [chemical binding]; other site 400667003017 active site 400667003018 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667003019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667003020 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667003021 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 400667003022 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 400667003023 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 400667003024 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 400667003025 active site 400667003026 purine riboside binding site [chemical binding]; other site 400667003027 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 400667003028 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 400667003029 RNA/DNA hybrid binding site [nucleotide binding]; other site 400667003030 active site 400667003031 carbon storage regulator; Provisional; Region: PRK01712 400667003032 aspartate kinase; Reviewed; Region: PRK06635 400667003033 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 400667003034 putative Mg ion binding site [ion binding]; other site 400667003035 putative catalytic residues [active] 400667003036 putative aspartate binding site [chemical binding]; other site 400667003037 putative nucleotide binding site [chemical binding]; other site 400667003038 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 400667003039 putative allosteric regulatory site; other site 400667003040 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 400667003041 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 400667003042 non-specific DNA binding site [nucleotide binding]; other site 400667003043 salt bridge; other site 400667003044 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 400667003045 sequence-specific DNA binding site [nucleotide binding]; other site 400667003046 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 400667003047 Catalytic site [active] 400667003048 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 400667003049 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 400667003050 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 400667003051 substrate interaction site [chemical binding]; other site 400667003052 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 400667003053 putative active site [active] 400667003054 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 400667003055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 400667003056 Terminase-like family; Region: Terminase_6; pfam03237 400667003057 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 400667003058 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 400667003059 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 400667003060 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 400667003061 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 400667003062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 400667003063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 400667003064 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 400667003065 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 400667003066 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 400667003067 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 400667003068 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 400667003069 Putative phage tail protein; Region: Phage-tail_3; pfam13550 400667003070 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 400667003071 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 400667003072 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 400667003073 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 400667003074 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 400667003075 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 400667003076 DNA binding site [nucleotide binding] 400667003077 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 400667003078 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 400667003079 Catalytic site [active] 400667003080 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 400667003081 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 400667003082 active site 400667003083 Int/Topo IB signature motif; other site 400667003084 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 400667003085 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 400667003086 active site 400667003087 motif 2; other site 400667003088 motif 3; other site 400667003089 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 400667003090 DHHA1 domain; Region: DHHA1; pfam02272 400667003091 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 400667003092 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 400667003093 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 400667003094 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 400667003095 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 400667003096 active site 400667003097 dimer interface [polypeptide binding]; other site 400667003098 motif 2; other site 400667003099 motif 3; other site 400667003100 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 400667003101 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 400667003102 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 400667003103 Peptidase family M48; Region: Peptidase_M48; pfam01435 400667003104 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 400667003105 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400667003106 active site 400667003107 catalytic tetrad [active] 400667003108 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 400667003109 ligand binding site [chemical binding]; other site 400667003110 flexible hinge region; other site 400667003111 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 400667003112 putative switch regulator; other site 400667003113 non-specific DNA interactions [nucleotide binding]; other site 400667003114 DNA binding site [nucleotide binding] 400667003115 sequence specific DNA binding site [nucleotide binding]; other site 400667003116 putative cAMP binding site [chemical binding]; other site 400667003117 OsmC-like protein; Region: OsmC; cl00767 400667003118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667003119 Coenzyme A binding pocket [chemical binding]; other site 400667003120 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400667003121 Peptidase family M23; Region: Peptidase_M23; pfam01551 400667003122 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 400667003123 Clp amino terminal domain; Region: Clp_N; pfam02861 400667003124 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 400667003125 Walker A motif; other site 400667003126 ATP binding site [chemical binding]; other site 400667003127 Walker B motif; other site 400667003128 arginine finger; other site 400667003129 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 400667003130 Walker A motif; other site 400667003131 ATP binding site [chemical binding]; other site 400667003132 Walker B motif; other site 400667003133 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 400667003134 Competence-damaged protein; Region: CinA; pfam02464 400667003135 Methyltransferase domain; Region: Methyltransf_26; pfam13659 400667003136 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 400667003137 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 400667003138 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 400667003139 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 400667003140 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 400667003141 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 400667003142 active site 400667003143 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 400667003144 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667003145 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667003146 ligand binding site [chemical binding]; other site 400667003147 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 400667003148 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667003149 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400667003150 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 400667003151 dimer interface [polypeptide binding]; other site 400667003152 substrate binding pocket (H-site) [chemical binding]; other site 400667003153 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 400667003154 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 400667003155 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 400667003156 generic binding surface II; other site 400667003157 generic binding surface I; other site 400667003158 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 400667003159 putative catalytic site [active] 400667003160 putative metal binding site [ion binding]; other site 400667003161 putative phosphate binding site [ion binding]; other site 400667003162 glutathionine S-transferase; Provisional; Region: PRK10542 400667003163 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 400667003164 C-terminal domain interface [polypeptide binding]; other site 400667003165 GSH binding site (G-site) [chemical binding]; other site 400667003166 dimer interface [polypeptide binding]; other site 400667003167 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 400667003168 dimer interface [polypeptide binding]; other site 400667003169 N-terminal domain interface [polypeptide binding]; other site 400667003170 substrate binding pocket (H-site) [chemical binding]; other site 400667003171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667003172 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667003173 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 400667003174 catalytic residue [active] 400667003175 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 400667003176 catalytic residues [active] 400667003177 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 400667003178 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 400667003179 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 400667003180 S-adenosylmethionine binding site [chemical binding]; other site 400667003181 KTSC domain; Region: KTSC; pfam13619 400667003182 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 400667003183 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 400667003184 decamer (pentamer of dimers) interface [polypeptide binding]; other site 400667003185 catalytic triad [active] 400667003186 dimer interface [polypeptide binding]; other site 400667003187 peroxidatic and resolving cysteines [active] 400667003188 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 400667003189 ATP binding site [chemical binding]; other site 400667003190 putative Mg++ binding site [ion binding]; other site 400667003191 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 400667003192 nucleotide binding region [chemical binding]; other site 400667003193 ATP-binding site [chemical binding]; other site 400667003194 Helicase associated domain (HA2); Region: HA2; pfam04408 400667003195 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 400667003196 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 400667003197 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 400667003198 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 400667003199 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 400667003200 dimer interface [polypeptide binding]; other site 400667003201 active site 400667003202 CoA binding pocket [chemical binding]; other site 400667003203 outer membrane porin, OprD family; Region: OprD; pfam03573 400667003204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003205 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003206 putative substrate translocation pore; other site 400667003207 benzoate transporter; Region: benE; TIGR00843 400667003208 Benzoate membrane transport protein; Region: BenE; pfam03594 400667003209 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 400667003210 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 400667003211 putative NAD(P) binding site [chemical binding]; other site 400667003212 active site 400667003213 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 400667003214 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 400667003215 FAD binding pocket [chemical binding]; other site 400667003216 FAD binding motif [chemical binding]; other site 400667003217 phosphate binding motif [ion binding]; other site 400667003218 beta-alpha-beta structure motif; other site 400667003219 NAD binding pocket [chemical binding]; other site 400667003220 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 400667003221 inter-subunit interface; other site 400667003222 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 400667003223 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 400667003224 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 400667003225 putative alpha subunit interface [polypeptide binding]; other site 400667003226 putative active site [active] 400667003227 putative substrate binding site [chemical binding]; other site 400667003228 Fe binding site [ion binding]; other site 400667003229 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 400667003230 dimerizarion interface [polypeptide binding]; other site 400667003231 CrgA pocket; other site 400667003232 substrate binding pocket [chemical binding]; other site 400667003233 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 400667003234 metal-binding site [ion binding] 400667003235 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 400667003236 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 400667003237 metal-binding site [ion binding] 400667003238 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 400667003239 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 400667003240 motif II; other site 400667003241 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400667003242 DNA binding residues [nucleotide binding] 400667003243 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 400667003244 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667003245 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 400667003246 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 400667003247 generic binding surface I; other site 400667003248 generic binding surface II; other site 400667003249 Predicted transcriptional regulator [Transcription]; Region: COG2932 400667003250 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 400667003251 Catalytic site [active] 400667003252 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 400667003253 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 400667003254 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667003255 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 400667003256 DNA-binding site [nucleotide binding]; DNA binding site 400667003257 RNA-binding motif; other site 400667003258 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 400667003259 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 400667003260 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667003261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003262 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667003263 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667003264 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 400667003265 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 400667003266 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400667003267 active site 400667003268 HIGH motif; other site 400667003269 nucleotide binding site [chemical binding]; other site 400667003270 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 400667003271 KMSKS motif; other site 400667003272 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 400667003273 tRNA binding surface [nucleotide binding]; other site 400667003274 anticodon binding site; other site 400667003275 KpsF/GutQ family protein; Region: kpsF; TIGR00393 400667003276 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 400667003277 putative active site [active] 400667003278 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 400667003279 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400667003280 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 400667003281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 400667003282 OstA-like protein; Region: OstA; pfam03968 400667003283 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 400667003284 Walker A/P-loop; other site 400667003285 ATP binding site [chemical binding]; other site 400667003286 ABC transporter; Region: ABC_tran; pfam00005 400667003287 Q-loop/lid; other site 400667003288 ABC transporter signature motif; other site 400667003289 Walker B; other site 400667003290 D-loop; other site 400667003291 H-loop/switch region; other site 400667003292 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 400667003293 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 400667003294 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400667003295 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 400667003296 Walker A/P-loop; other site 400667003297 ATP binding site [chemical binding]; other site 400667003298 Q-loop/lid; other site 400667003299 ABC transporter signature motif; other site 400667003300 Walker B; other site 400667003301 D-loop; other site 400667003302 H-loop/switch region; other site 400667003303 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 400667003304 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667003305 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667003306 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 400667003307 Uncharacterized conserved protein [Function unknown]; Region: COG1739 400667003308 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400667003309 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 400667003310 putative trimer interface [polypeptide binding]; other site 400667003311 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 400667003312 trimer interface [polypeptide binding]; other site 400667003313 active site 400667003314 substrate binding site [chemical binding]; other site 400667003315 putative CoA binding site [chemical binding]; other site 400667003316 CoA binding site [chemical binding]; other site 400667003317 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 400667003318 Ligand Binding Site [chemical binding]; other site 400667003319 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 400667003320 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 400667003321 S-adenosylmethionine binding site [chemical binding]; other site 400667003322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 400667003323 Ferredoxin [Energy production and conversion]; Region: COG1146 400667003324 4Fe-4S binding domain; Region: Fer4; pfam00037 400667003325 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 400667003326 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400667003327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667003328 Coenzyme A binding pocket [chemical binding]; other site 400667003329 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 400667003330 MutS domain III; Region: MutS_III; pfam05192 400667003331 MutS domain V; Region: MutS_V; pfam00488 400667003332 Walker A/P-loop; other site 400667003333 ATP binding site [chemical binding]; other site 400667003334 Q-loop/lid; other site 400667003335 ABC transporter signature motif; other site 400667003336 Walker B; other site 400667003337 D-loop; other site 400667003338 H-loop/switch region; other site 400667003339 MutS domain I; Region: MutS_I; pfam01624 400667003340 MutS domain II; Region: MutS_II; pfam05188 400667003341 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 400667003342 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 400667003343 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 400667003344 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 400667003345 putative acyl-acceptor binding pocket; other site 400667003346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667003347 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667003348 benzoate transport; Region: 2A0115; TIGR00895 400667003349 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003350 putative substrate translocation pore; other site 400667003351 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003352 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 400667003353 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 400667003354 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 400667003355 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 400667003356 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400667003357 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 400667003358 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 400667003359 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 400667003360 motif II; other site 400667003361 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 400667003362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003363 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 400667003364 dimerization interface [polypeptide binding]; other site 400667003365 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 400667003366 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 400667003367 putative active site [active] 400667003368 hypothetical protein; Provisional; Region: PRK05463 400667003369 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 400667003370 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 400667003371 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 400667003372 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 400667003373 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667003374 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 400667003375 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 400667003376 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 400667003377 carboxyltransferase (CT) interaction site; other site 400667003378 biotinylation site [posttranslational modification]; other site 400667003379 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 400667003380 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 400667003381 Cl- selectivity filter; other site 400667003382 Cl- binding residues [ion binding]; other site 400667003383 pore gating glutamate residue; other site 400667003384 dimer interface [polypeptide binding]; other site 400667003385 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 400667003386 putative hydrophobic ligand binding site [chemical binding]; other site 400667003387 protein interface [polypeptide binding]; other site 400667003388 gate; other site 400667003389 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 400667003390 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 400667003391 NAD binding site [chemical binding]; other site 400667003392 structural Zn binding site [ion binding]; other site 400667003393 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 400667003394 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 400667003395 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 400667003396 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667003397 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400667003398 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 400667003399 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 400667003400 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 400667003401 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 400667003402 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 400667003403 carboxyltransferase (CT) interaction site; other site 400667003404 biotinylation site [posttranslational modification]; other site 400667003405 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400667003406 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667003407 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 400667003408 putative DNA binding site [nucleotide binding]; other site 400667003409 putative Zn2+ binding site [ion binding]; other site 400667003410 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 400667003411 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 400667003412 allophanate hydrolase; Provisional; Region: PRK08186 400667003413 Amidase; Region: Amidase; cl11426 400667003414 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 400667003415 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 400667003416 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 400667003417 Walker A/P-loop; other site 400667003418 ATP binding site [chemical binding]; other site 400667003419 Q-loop/lid; other site 400667003420 ABC transporter signature motif; other site 400667003421 Walker B; other site 400667003422 D-loop; other site 400667003423 H-loop/switch region; other site 400667003424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003425 putative PBP binding loops; other site 400667003426 dimer interface [polypeptide binding]; other site 400667003427 ABC-ATPase subunit interface; other site 400667003428 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 400667003429 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 400667003430 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 400667003431 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 400667003432 Uncharacterized conserved protein [Function unknown]; Region: COG1262 400667003433 Protein of unknown function (DUF770); Region: DUF770; cl01402 400667003434 Protein of unknown function (DUF770); Region: DUF770; cl01402 400667003435 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 400667003436 Protein of unknown function (DUF877); Region: DUF877; pfam05943 400667003437 Protein of unknown function (DUF796); Region: DUF796; pfam05638 400667003438 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 400667003439 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 400667003440 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 400667003441 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 400667003442 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 400667003443 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 400667003444 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 400667003445 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 400667003446 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 400667003447 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667003448 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667003449 ligand binding site [chemical binding]; other site 400667003450 PAAR motif; Region: PAAR_motif; pfam05488 400667003451 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 400667003452 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 400667003453 Walker A motif; other site 400667003454 ATP binding site [chemical binding]; other site 400667003455 Walker B motif; other site 400667003456 arginine finger; other site 400667003457 JNK_SAPK-associated protein-1; Region: Jnk-SapK_ap_N; pfam09744 400667003458 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 400667003459 Walker A motif; other site 400667003460 ATP binding site [chemical binding]; other site 400667003461 Walker B motif; other site 400667003462 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 400667003463 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 400667003464 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 400667003465 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 400667003466 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 400667003467 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 400667003468 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 400667003469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667003471 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400667003472 dimerization interface [polypeptide binding]; other site 400667003473 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 400667003474 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 400667003475 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 400667003476 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 400667003477 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 400667003478 dimer interface [polypeptide binding]; other site 400667003479 catalytic motif [active] 400667003480 nucleoside/Zn binding site; other site 400667003481 putative cyanate transporter; Provisional; Region: cynX; PRK09705 400667003482 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003483 putative substrate translocation pore; other site 400667003484 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 400667003485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 400667003486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667003487 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 400667003488 Coenzyme A binding pocket [chemical binding]; other site 400667003489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 400667003490 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400667003491 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 400667003492 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 400667003493 Domain of unknown function (DUF333); Region: DUF333; pfam03891 400667003494 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 400667003495 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400667003496 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 400667003497 active site 400667003498 inhibitor site; inhibition site 400667003499 dimer interface [polypeptide binding]; other site 400667003500 catalytic residue [active] 400667003501 EamA-like transporter family; Region: EamA; cl17759 400667003502 EamA-like transporter family; Region: EamA; cl17759 400667003503 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400667003504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667003505 DNA-binding site [nucleotide binding]; DNA binding site 400667003506 FCD domain; Region: FCD; pfam07729 400667003507 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 400667003508 Proline racemase; Region: Pro_racemase; pfam05544 400667003509 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400667003510 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400667003511 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 400667003512 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 400667003513 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 400667003514 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 400667003515 PAS domain; Region: PAS_9; pfam13426 400667003516 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667003517 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667003518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003519 putative substrate translocation pore; other site 400667003520 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400667003521 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 400667003522 dimer interface [polypeptide binding]; other site 400667003523 NADP binding site [chemical binding]; other site 400667003524 catalytic residues [active] 400667003525 amino acid transporter; Region: 2A0306; TIGR00909 400667003526 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 400667003527 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 400667003528 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 400667003529 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 400667003530 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 400667003531 substrate binding site [chemical binding]; other site 400667003532 dimer interface [polypeptide binding]; other site 400667003533 NADP binding site [chemical binding]; other site 400667003534 catalytic residues [active] 400667003535 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 400667003536 substrate binding site [chemical binding]; other site 400667003537 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 400667003538 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 400667003539 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 400667003540 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 400667003541 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 400667003542 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 400667003543 beta-alpha-beta structure motif; other site 400667003544 NAD(p) ribose binding residues [chemical binding]; other site 400667003545 NAD binding pocket [chemical binding]; other site 400667003546 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 400667003547 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 400667003548 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 400667003549 catalytic loop [active] 400667003550 iron binding site [ion binding]; other site 400667003551 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 400667003552 trimer interface [polypeptide binding]; other site 400667003553 oxyanion hole (OAH) forming residues; other site 400667003554 enoyl-CoA hydratase; Provisional; Region: PRK08140 400667003555 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 400667003556 substrate binding site [chemical binding]; other site 400667003557 oxyanion hole (OAH) forming residues; other site 400667003558 trimer interface [polypeptide binding]; other site 400667003559 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 400667003560 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400667003561 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400667003562 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 400667003563 dimer interface [polypeptide binding]; other site 400667003564 active site 400667003565 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667003566 acyl-activating enzyme (AAE) consensus motif; other site 400667003567 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667003568 CoA binding site [chemical binding]; other site 400667003569 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 400667003570 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400667003571 putative trimer interface [polypeptide binding]; other site 400667003572 putative CoA binding site [chemical binding]; other site 400667003573 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 400667003574 CoenzymeA binding site [chemical binding]; other site 400667003575 subunit interaction site [polypeptide binding]; other site 400667003576 PHB binding site; other site 400667003577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667003578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667003579 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 400667003580 putative heme binding pocket [chemical binding]; other site 400667003581 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 400667003582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003583 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 400667003584 putative effector binding pocket; other site 400667003585 putative dimerization interface [polypeptide binding]; other site 400667003586 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400667003587 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667003588 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 400667003589 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 400667003590 Bacterial transcriptional regulator; Region: IclR; pfam01614 400667003591 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 400667003592 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400667003593 alanine racemase; Reviewed; Region: PRK13340 400667003594 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 400667003595 active site 400667003596 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667003597 dimer interface [polypeptide binding]; other site 400667003598 substrate binding site [chemical binding]; other site 400667003599 catalytic residues [active] 400667003600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 400667003601 DNA-binding site [nucleotide binding]; DNA binding site 400667003602 UTRA domain; Region: UTRA; pfam07702 400667003603 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400667003604 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 400667003605 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667003606 Walker A/P-loop; other site 400667003607 ATP binding site [chemical binding]; other site 400667003608 Q-loop/lid; other site 400667003609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667003610 H-loop/switch region; other site 400667003611 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 400667003612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003613 dimer interface [polypeptide binding]; other site 400667003614 conserved gate region; other site 400667003615 putative PBP binding loops; other site 400667003616 ABC-ATPase subunit interface; other site 400667003617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003618 dimer interface [polypeptide binding]; other site 400667003619 conserved gate region; other site 400667003620 putative PBP binding loops; other site 400667003621 ABC-ATPase subunit interface; other site 400667003622 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 400667003623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667003624 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 400667003625 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667003626 catalytic residue [active] 400667003627 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 400667003628 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667003629 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 400667003630 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 400667003631 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 400667003632 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 400667003633 dimer interface [polypeptide binding]; other site 400667003634 PYR/PP interface [polypeptide binding]; other site 400667003635 TPP binding site [chemical binding]; other site 400667003636 substrate binding site [chemical binding]; other site 400667003637 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 400667003638 TPP-binding site [chemical binding]; other site 400667003639 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 400667003640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667003641 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 400667003642 putative effector binding pocket; other site 400667003643 dimerization interface [polypeptide binding]; other site 400667003644 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 400667003645 metal binding site [ion binding]; metal-binding site 400667003646 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 400667003647 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667003648 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400667003649 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 400667003650 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 400667003651 carboxyltransferase (CT) interaction site; other site 400667003652 biotinylation site [posttranslational modification]; other site 400667003653 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 400667003654 trimer interface [polypeptide binding]; other site 400667003655 oxyanion hole (OAH) forming residues; other site 400667003656 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 400667003657 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 400667003658 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667003659 active site 400667003660 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667003661 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667003662 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 400667003663 acyl-activating enzyme (AAE) consensus motif; other site 400667003664 putative AMP binding site [chemical binding]; other site 400667003665 putative active site [active] 400667003666 putative CoA binding site [chemical binding]; other site 400667003667 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 400667003668 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 400667003669 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 400667003670 active site 400667003671 catalytic triad [active] 400667003672 oxyanion hole [active] 400667003673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667003675 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 400667003676 putative effector binding pocket; other site 400667003677 dimerization interface [polypeptide binding]; other site 400667003678 Competence-damaged protein; Region: CinA; pfam02464 400667003679 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 400667003680 heme binding pocket [chemical binding]; other site 400667003681 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 400667003682 domain interactions; other site 400667003683 short chain dehydrogenase; Provisional; Region: PRK06701 400667003684 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 400667003685 NAD binding site [chemical binding]; other site 400667003686 metal binding site [ion binding]; metal-binding site 400667003687 active site 400667003688 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 400667003689 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 400667003690 Catalytic site [active] 400667003691 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667003692 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400667003693 AsnC family; Region: AsnC_trans_reg; pfam01037 400667003694 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 400667003695 Na binding site [ion binding]; other site 400667003696 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 400667003697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400667003698 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 400667003699 dimer interface [polypeptide binding]; other site 400667003700 phosphorylation site [posttranslational modification] 400667003701 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 400667003702 ATP binding site [chemical binding]; other site 400667003703 Mg2+ binding site [ion binding]; other site 400667003704 G-X-G motif; other site 400667003705 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400667003706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667003707 active site 400667003708 phosphorylation site [posttranslational modification] 400667003709 intermolecular recognition site; other site 400667003710 dimerization interface [polypeptide binding]; other site 400667003711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667003712 active site 400667003713 phosphorylation site [posttranslational modification] 400667003714 intermolecular recognition site; other site 400667003715 dimerization interface [polypeptide binding]; other site 400667003716 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 400667003717 DNA binding residues [nucleotide binding] 400667003718 dimerization interface [polypeptide binding]; other site 400667003719 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667003720 Coenzyme A binding pocket [chemical binding]; other site 400667003721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003722 dimer interface [polypeptide binding]; other site 400667003723 conserved gate region; other site 400667003724 putative PBP binding loops; other site 400667003725 ABC-ATPase subunit interface; other site 400667003726 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003727 dimer interface [polypeptide binding]; other site 400667003728 conserved gate region; other site 400667003729 putative PBP binding loops; other site 400667003730 ABC-ATPase subunit interface; other site 400667003731 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400667003732 Walker A/P-loop; other site 400667003733 ATP binding site [chemical binding]; other site 400667003734 ABC transporter; Region: ABC_tran; pfam00005 400667003735 Q-loop/lid; other site 400667003736 ABC transporter signature motif; other site 400667003737 Walker B; other site 400667003738 D-loop; other site 400667003739 H-loop/switch region; other site 400667003740 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 400667003741 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 400667003742 substrate binding pocket [chemical binding]; other site 400667003743 membrane-bound complex binding site; other site 400667003744 hinge residues; other site 400667003745 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 400667003746 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 400667003747 membrane-bound complex binding site; other site 400667003748 hinge residues; other site 400667003749 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 400667003750 putative effector binding pocket; other site 400667003751 dimerization interface [polypeptide binding]; other site 400667003752 LysE type translocator; Region: LysE; cl00565 400667003753 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400667003754 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 400667003755 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 400667003756 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400667003757 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 400667003758 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 400667003759 trimer interface [polypeptide binding]; other site 400667003760 active site 400667003761 substrate binding site [chemical binding]; other site 400667003762 CoA binding site [chemical binding]; other site 400667003763 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 400667003764 active site residue [active] 400667003765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667003766 short chain dehydrogenase; Provisional; Region: PRK12937 400667003767 NAD(P) binding site [chemical binding]; other site 400667003768 active site 400667003769 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003770 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 400667003771 putative effector binding pocket; other site 400667003772 putative dimerization interface [polypeptide binding]; other site 400667003773 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667003774 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 400667003775 N-terminal domain interface [polypeptide binding]; other site 400667003776 dimer interface [polypeptide binding]; other site 400667003777 substrate binding pocket (H-site) [chemical binding]; other site 400667003778 glutathione S-transferase; Provisional; Region: PRK15113 400667003779 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 400667003780 GSH binding site (G-site) [chemical binding]; other site 400667003781 dimer interface [polypeptide binding]; other site 400667003782 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 400667003783 putative dimer interface [polypeptide binding]; other site 400667003784 N-terminal domain interface [polypeptide binding]; other site 400667003785 putative substrate binding pocket (H-site) [chemical binding]; other site 400667003786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003787 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 400667003788 putative dimerization interface [polypeptide binding]; other site 400667003789 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 400667003790 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 400667003791 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 400667003792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667003793 homodimer interface [polypeptide binding]; other site 400667003794 catalytic residue [active] 400667003795 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 400667003796 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 400667003797 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400667003798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667003799 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003800 putative substrate translocation pore; other site 400667003801 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 400667003802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667003803 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 400667003804 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 400667003805 dimerization interface [polypeptide binding]; other site 400667003806 substrate binding pocket [chemical binding]; other site 400667003807 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 400667003808 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 400667003809 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 400667003810 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 400667003811 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 400667003812 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 400667003813 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 400667003814 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 400667003815 Malonate transporter MadL subunit; Region: MadL; cl04273 400667003816 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 400667003817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003818 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 400667003819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667003821 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 400667003822 dimerization interface [polypeptide binding]; other site 400667003823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667003824 DNA-binding site [nucleotide binding]; DNA binding site 400667003825 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 400667003826 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 400667003827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667003828 homodimer interface [polypeptide binding]; other site 400667003829 catalytic residue [active] 400667003830 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 400667003831 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 400667003832 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 400667003833 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667003834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667003835 active site 400667003836 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 400667003837 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 400667003838 D-galactonate transporter; Region: 2A0114; TIGR00893 400667003839 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667003840 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 400667003841 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 400667003842 substrate binding pocket [chemical binding]; other site 400667003843 membrane-bound complex binding site; other site 400667003844 hinge residues; other site 400667003845 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 400667003846 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 400667003847 Walker A/P-loop; other site 400667003848 ATP binding site [chemical binding]; other site 400667003849 Q-loop/lid; other site 400667003850 ABC transporter signature motif; other site 400667003851 Walker B; other site 400667003852 D-loop; other site 400667003853 H-loop/switch region; other site 400667003854 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 400667003855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003856 dimer interface [polypeptide binding]; other site 400667003857 conserved gate region; other site 400667003858 putative PBP binding loops; other site 400667003859 ABC-ATPase subunit interface; other site 400667003860 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 400667003861 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 400667003862 active site 400667003863 iron coordination sites [ion binding]; other site 400667003864 substrate binding pocket [chemical binding]; other site 400667003865 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 400667003866 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 400667003867 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 400667003868 Na binding site [ion binding]; other site 400667003869 putative substrate binding site [chemical binding]; other site 400667003870 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400667003871 FCD domain; Region: FCD; pfam07729 400667003872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003873 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 400667003874 putative effector binding pocket; other site 400667003875 dimerization interface [polypeptide binding]; other site 400667003876 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 400667003877 dimer interface [polypeptide binding]; other site 400667003878 Isochorismatase family; Region: Isochorismatase; pfam00857 400667003879 catalytic triad [active] 400667003880 conserved cis-peptide bond; other site 400667003881 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 400667003882 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 400667003883 active site 400667003884 ArsC family; Region: ArsC; pfam03960 400667003885 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 400667003886 catalytic residues [active] 400667003887 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 400667003888 dimerization interface [polypeptide binding]; other site 400667003889 putative DNA binding site [nucleotide binding]; other site 400667003890 putative Zn2+ binding site [ion binding]; other site 400667003891 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 400667003892 arsenical-resistance protein; Region: acr3; TIGR00832 400667003893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667003894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667003895 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 400667003896 putative dimerization interface [polypeptide binding]; other site 400667003897 putative substrate binding pocket [chemical binding]; other site 400667003898 Chromate transporter; Region: Chromate_transp; pfam02417 400667003899 Chromate transporter; Region: Chromate_transp; pfam02417 400667003900 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 400667003901 catalytic residues [active] 400667003902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667003903 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 400667003904 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667003905 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 400667003906 TPR motif; other site 400667003907 binding surface 400667003908 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 400667003909 active site 400667003910 CoA binding site [chemical binding]; other site 400667003911 substrate binding site [chemical binding]; other site 400667003912 trimer interface [polypeptide binding]; other site 400667003913 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 400667003914 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 400667003915 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 400667003916 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 400667003917 putative active site [active] 400667003918 putative PHP Thumb interface [polypeptide binding]; other site 400667003919 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 400667003920 generic binding surface I; other site 400667003921 generic binding surface II; other site 400667003922 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 400667003923 active site 400667003924 homodimer interface [polypeptide binding]; other site 400667003925 homotetramer interface [polypeptide binding]; other site 400667003926 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667003927 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 400667003928 aminotransferase AlaT; Validated; Region: PRK09265 400667003929 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 400667003930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667003931 homodimer interface [polypeptide binding]; other site 400667003932 catalytic residue [active] 400667003933 methionine sulfoxide reductase B; Provisional; Region: PRK00222 400667003934 SelR domain; Region: SelR; pfam01641 400667003935 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 400667003936 catalytic residues [active] 400667003937 dimer interface [polypeptide binding]; other site 400667003938 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667003939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667003940 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667003941 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 400667003942 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 400667003943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667003944 homodimer interface [polypeptide binding]; other site 400667003945 catalytic residue [active] 400667003946 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 400667003947 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400667003948 metal binding triad; other site 400667003949 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 400667003950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400667003951 Zn2+ binding site [ion binding]; other site 400667003952 Mg2+ binding site [ion binding]; other site 400667003953 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 400667003954 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 400667003955 phosphoribosylglycinamide formyltransferase 2; Region: purT; TIGR01142 400667003956 ATP-grasp domain; Region: ATP-grasp; pfam02222 400667003957 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 400667003958 active site 1 [active] 400667003959 dimer interface [polypeptide binding]; other site 400667003960 hexamer interface [polypeptide binding]; other site 400667003961 active site 2 [active] 400667003962 AzlC protein; Region: AzlC; pfam03591 400667003963 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 400667003964 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 400667003965 ligand binding site [chemical binding]; other site 400667003966 flexible hinge region; other site 400667003967 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 400667003968 putative switch regulator; other site 400667003969 non-specific DNA interactions [nucleotide binding]; other site 400667003970 DNA binding site [nucleotide binding] 400667003971 sequence specific DNA binding site [nucleotide binding]; other site 400667003972 putative cAMP binding site [chemical binding]; other site 400667003973 Protein of unknown function (DUF962); Region: DUF962; cl01879 400667003974 GTP-binding protein YchF; Reviewed; Region: PRK09601 400667003975 YchF GTPase; Region: YchF; cd01900 400667003976 Switch II region; other site 400667003977 G3 box; other site 400667003978 GTP/Mg2+ binding site [chemical binding]; other site 400667003979 G4 box; other site 400667003980 G5 box; other site 400667003981 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 400667003982 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667003983 ABC-ATPase subunit interface; other site 400667003984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667003985 Q-loop/lid; other site 400667003986 ABC transporter signature motif; other site 400667003987 Walker B; other site 400667003988 D-loop; other site 400667003989 H-loop/switch region; other site 400667003990 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 400667003991 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 400667003992 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 400667003993 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 400667003994 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 400667003995 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 400667003996 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 400667003997 Flavin binding site [chemical binding]; other site 400667003998 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 400667003999 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667004000 active site 400667004001 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 400667004002 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 400667004003 N-terminal domain interface [polypeptide binding]; other site 400667004004 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 400667004005 substrate binding pocket [chemical binding]; other site 400667004006 membrane-bound complex binding site; other site 400667004007 hinge residues; other site 400667004008 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667004009 dimer interface [polypeptide binding]; other site 400667004010 conserved gate region; other site 400667004011 putative PBP binding loops; other site 400667004012 ABC-ATPase subunit interface; other site 400667004013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667004014 dimer interface [polypeptide binding]; other site 400667004015 conserved gate region; other site 400667004016 putative PBP binding loops; other site 400667004017 ABC-ATPase subunit interface; other site 400667004018 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400667004019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667004020 Q-loop/lid; other site 400667004021 ABC transporter signature motif; other site 400667004022 Walker B; other site 400667004023 D-loop; other site 400667004024 H-loop/switch region; other site 400667004025 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400667004026 AsnC family; Region: AsnC_trans_reg; pfam01037 400667004027 hypothetical protein; Validated; Region: PRK00110 400667004028 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 400667004029 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400667004030 putative acyl-acceptor binding pocket; other site 400667004031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667004032 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 400667004033 active site 400667004034 catalytic residues [active] 400667004035 Int/Topo IB signature motif; other site 400667004036 DNA binding site [nucleotide binding] 400667004037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667004039 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 400667004040 dimerization interface [polypeptide binding]; other site 400667004041 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 400667004042 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 400667004043 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 400667004044 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 400667004045 Na binding site [ion binding]; other site 400667004046 EamA-like transporter family; Region: EamA; pfam00892 400667004047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004048 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 400667004049 dimerization interface [polypeptide binding]; other site 400667004050 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 400667004051 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 400667004052 PapC N-terminal domain; Region: PapC_N; pfam13954 400667004053 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 400667004054 PapC C-terminal domain; Region: PapC_C; pfam13953 400667004055 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 400667004056 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 400667004057 Fimbrial protein; Region: Fimbrial; cl01416 400667004058 biotin synthase; Region: bioB; TIGR00433 400667004059 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 400667004060 FeS/SAM binding site; other site 400667004061 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 400667004062 epoxyqueuosine reductase; Region: TIGR00276 400667004063 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 400667004064 putative carbohydrate kinase; Provisional; Region: PRK10565 400667004065 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 400667004066 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 400667004067 putative substrate binding site [chemical binding]; other site 400667004068 putative ATP binding site [chemical binding]; other site 400667004069 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 400667004070 dimer interface [polypeptide binding]; other site 400667004071 putative DNA-binding cleft [nucleotide binding]; other site 400667004072 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400667004073 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 400667004074 non-specific DNA binding site [nucleotide binding]; other site 400667004075 salt bridge; other site 400667004076 sequence-specific DNA binding site [nucleotide binding]; other site 400667004077 Cupin domain; Region: Cupin_2; cl17218 400667004078 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 400667004079 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 400667004080 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 400667004081 S-adenosylmethionine synthetase; Validated; Region: PRK05250 400667004082 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 400667004083 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 400667004084 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 400667004085 TPP-binding site [chemical binding]; other site 400667004086 dimer interface [polypeptide binding]; other site 400667004087 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 400667004088 PYR/PP interface [polypeptide binding]; other site 400667004089 TPP binding site [chemical binding]; other site 400667004090 dimer interface [polypeptide binding]; other site 400667004091 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400667004092 OsmC-like protein; Region: OsmC; pfam02566 400667004093 Uncharacterized conserved protein [Function unknown]; Region: COG2353 400667004094 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 400667004095 Predicted periplasmic protein [Function unknown]; Region: COG3698 400667004096 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 400667004097 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 400667004098 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 400667004099 S-adenosylmethionine binding site [chemical binding]; other site 400667004100 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 400667004101 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 400667004102 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 400667004103 Glutamate binding site [chemical binding]; other site 400667004104 NAD binding site [chemical binding]; other site 400667004105 catalytic residues [active] 400667004106 AsnC family; Region: AsnC_trans_reg; pfam01037 400667004107 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 400667004108 Na binding site [ion binding]; other site 400667004109 NAD-dependent deacetylase; Provisional; Region: PRK00481 400667004110 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 400667004111 NAD+ binding site [chemical binding]; other site 400667004112 substrate binding site [chemical binding]; other site 400667004113 Zn binding site [ion binding]; other site 400667004114 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 400667004115 lipoyl attachment site [posttranslational modification]; other site 400667004116 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667004117 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667004118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004119 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 400667004120 putative active site [active] 400667004121 putative catalytic site [active] 400667004122 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 400667004123 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400667004124 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 400667004125 Walker A/P-loop; other site 400667004126 ATP binding site [chemical binding]; other site 400667004127 Q-loop/lid; other site 400667004128 ABC transporter signature motif; other site 400667004129 Walker B; other site 400667004130 D-loop; other site 400667004131 H-loop/switch region; other site 400667004132 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 400667004133 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 400667004134 serine/threonine transporter SstT; Provisional; Region: PRK13628 400667004135 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667004136 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 400667004137 dimerization interface [polypeptide binding]; other site 400667004138 putative DNA binding site [nucleotide binding]; other site 400667004139 putative Zn2+ binding site [ion binding]; other site 400667004140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667004141 Cupin superfamily protein; Region: Cupin_4; pfam08007 400667004142 Maf-like protein; Region: Maf; pfam02545 400667004143 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 400667004144 active site 400667004145 dimer interface [polypeptide binding]; other site 400667004146 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 400667004147 Phosphoglycerate kinase; Region: PGK; pfam00162 400667004148 hinge regions; other site 400667004149 ADP binding site [chemical binding]; other site 400667004150 catalytic site [active] 400667004151 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 400667004152 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 400667004153 intersubunit interface [polypeptide binding]; other site 400667004154 active site 400667004155 zinc binding site [ion binding]; other site 400667004156 Na+ binding site [ion binding]; other site 400667004157 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 400667004158 SurA N-terminal domain; Region: SurA_N; pfam09312 400667004159 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 400667004160 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 400667004161 Organic solvent tolerance protein; Region: OstA_C; pfam04453 400667004162 OstA-like protein; Region: OstA; cl00844 400667004163 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 400667004164 Phosphotransferase enzyme family; Region: APH; pfam01636 400667004165 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 400667004166 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 400667004167 Substrate binding site; other site 400667004168 metal-binding site 400667004169 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 400667004170 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 400667004171 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 400667004172 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 400667004173 Magnesium ion binding site [ion binding]; other site 400667004174 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 400667004175 ParB-like nuclease domain; Region: ParB; smart00470 400667004176 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 400667004177 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400667004178 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400667004179 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 400667004180 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400667004181 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 400667004182 Walker A/P-loop; other site 400667004183 ATP binding site [chemical binding]; other site 400667004184 Q-loop/lid; other site 400667004185 ABC transporter signature motif; other site 400667004186 Walker B; other site 400667004187 D-loop; other site 400667004188 H-loop/switch region; other site 400667004189 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 400667004190 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 400667004191 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 400667004192 Ligand binding site; other site 400667004193 oligomer interface; other site 400667004194 DNA polymerase III subunit delta'; Validated; Region: PRK05707 400667004195 PilZ domain; Region: PilZ; cl01260 400667004196 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 400667004197 active site 400667004198 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667004199 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667004200 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 400667004201 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 400667004202 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 400667004203 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 400667004204 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 400667004205 ligand binding site [chemical binding]; other site 400667004206 active site 400667004207 UGI interface [polypeptide binding]; other site 400667004208 catalytic site [active] 400667004209 enoyl-CoA hydratase; Provisional; Region: PRK07260 400667004210 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 400667004211 substrate binding site [chemical binding]; other site 400667004212 oxyanion hole (OAH) forming residues; other site 400667004213 trimer interface [polypeptide binding]; other site 400667004214 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 400667004215 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 400667004216 nucleoside/Zn binding site; other site 400667004217 dimer interface [polypeptide binding]; other site 400667004218 catalytic motif [active] 400667004219 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 400667004220 protein interface [polypeptide binding]; other site 400667004221 putative hydrophobic ligand binding site [chemical binding]; other site 400667004222 gate; other site 400667004223 cytidylate kinase; Provisional; Region: cmk; PRK00023 400667004224 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 400667004225 CMP-binding site; other site 400667004226 The sites determining sugar specificity; other site 400667004227 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 400667004228 RNA binding site [nucleotide binding]; other site 400667004229 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 400667004230 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 400667004231 RNA binding site [nucleotide binding]; other site 400667004232 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 400667004233 RNA binding site [nucleotide binding]; other site 400667004234 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 400667004235 RNA binding site [nucleotide binding]; other site 400667004236 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 400667004237 RNA binding site [nucleotide binding]; other site 400667004238 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 400667004239 IHF dimer interface [polypeptide binding]; other site 400667004240 IHF - DNA interface [nucleotide binding]; other site 400667004241 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 400667004242 active site 400667004243 dimer interface [polypeptide binding]; other site 400667004244 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 400667004245 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667004246 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 400667004247 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667004248 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667004249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004250 Predicted ATPase [General function prediction only]; Region: COG1485 400667004251 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 400667004252 active site 400667004253 DNA binding site [nucleotide binding] 400667004254 Int/Topo IB signature motif; other site 400667004255 Methyltransferase domain; Region: Methyltransf_25; pfam13649 400667004256 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 400667004257 Predicted transcriptional regulator [Transcription]; Region: COG2932 400667004258 sequence-specific DNA binding site [nucleotide binding]; other site 400667004259 salt bridge; other site 400667004260 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 400667004261 Catalytic site [active] 400667004262 replicative DNA helicase; Region: DnaB; TIGR00665 400667004263 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 400667004264 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 400667004265 Walker A motif; other site 400667004266 ATP binding site [chemical binding]; other site 400667004267 Walker B motif; other site 400667004268 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 400667004269 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 400667004270 active site 400667004271 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 400667004272 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 400667004273 Phage-related protein [Function unknown]; Region: COG4695; cl01923 400667004274 Phage portal protein; Region: Phage_portal; pfam04860 400667004275 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 400667004276 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 400667004277 Phage capsid family; Region: Phage_capsid; pfam05065 400667004278 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 400667004279 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 400667004280 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 400667004281 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 400667004282 catalytic residue [active] 400667004283 malate synthase G; Provisional; Region: PRK02999 400667004284 active site 400667004285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667004286 Coenzyme A binding pocket [chemical binding]; other site 400667004287 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400667004288 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400667004289 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400667004290 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400667004291 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 400667004292 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 400667004293 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 400667004294 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 400667004295 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 400667004296 N-terminal plug; other site 400667004297 ligand-binding site [chemical binding]; other site 400667004298 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_18; cd08505 400667004299 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 400667004300 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_18; cd08505 400667004301 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 400667004302 Peptidase M3 Thimet oligopeptidase (TOP) also includes neurolysin; Region: M3A_TOP; cd06455 400667004303 active site 400667004304 Zn binding site [ion binding]; other site 400667004305 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400667004306 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667004307 dimer interface [polypeptide binding]; other site 400667004308 conserved gate region; other site 400667004309 putative PBP binding loops; other site 400667004310 ABC-ATPase subunit interface; other site 400667004311 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 400667004312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667004313 dimer interface [polypeptide binding]; other site 400667004314 conserved gate region; other site 400667004315 putative PBP binding loops; other site 400667004316 ABC-ATPase subunit interface; other site 400667004317 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 400667004318 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400667004319 Q-loop/lid; other site 400667004320 ABC transporter signature motif; other site 400667004321 Walker B; other site 400667004322 D-loop; other site 400667004323 H-loop/switch region; other site 400667004324 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400667004325 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 400667004326 Walker A/P-loop; other site 400667004327 ATP binding site [chemical binding]; other site 400667004328 Q-loop/lid; other site 400667004329 ABC transporter signature motif; other site 400667004330 Walker B; other site 400667004331 D-loop; other site 400667004332 H-loop/switch region; other site 400667004333 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 400667004334 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 400667004335 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 400667004336 active site 400667004337 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 400667004338 catalytic core [active] 400667004339 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 400667004340 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 400667004341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667004342 NAD(P) binding site [chemical binding]; other site 400667004343 active site 400667004344 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 400667004345 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667004346 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400667004347 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667004348 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 400667004349 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 400667004350 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 400667004351 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 400667004352 ATP binding site [chemical binding]; other site 400667004353 putative Mg++ binding site [ion binding]; other site 400667004354 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 400667004355 nucleotide binding region [chemical binding]; other site 400667004356 ATP-binding site [chemical binding]; other site 400667004357 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 400667004358 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 400667004359 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 400667004360 cyclase homology domain; Region: CHD; cd07302 400667004361 nucleotidyl binding site; other site 400667004362 metal binding site [ion binding]; metal-binding site 400667004363 dimer interface [polypeptide binding]; other site 400667004364 cyclase homology domain; Region: CHD; cd07302 400667004365 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 400667004366 dimer interface [polypeptide binding]; other site 400667004367 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 400667004368 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 400667004369 catalytic loop [active] 400667004370 iron binding site [ion binding]; other site 400667004371 chaperone protein HscA; Provisional; Region: hscA; PRK05183 400667004372 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 400667004373 putative NEF/HSP70 interaction site [polypeptide binding]; other site 400667004374 nucleotide binding site [chemical binding]; other site 400667004375 SBD interface [polypeptide binding]; other site 400667004376 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 400667004377 HSP70 interaction site [polypeptide binding]; other site 400667004378 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 400667004379 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 400667004380 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 400667004381 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 400667004382 active site 400667004383 trimerization site [polypeptide binding]; other site 400667004384 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 400667004385 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 400667004386 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667004387 catalytic residue [active] 400667004388 Transcriptional regulator; Region: Rrf2; cl17282 400667004389 Rrf2 family protein; Region: rrf2_super; TIGR00738 400667004390 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 400667004391 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 400667004392 IHF dimer interface [polypeptide binding]; other site 400667004393 IHF - DNA interface [nucleotide binding]; other site 400667004394 SurA N-terminal domain; Region: SurA_N_3; cl07813 400667004395 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 400667004396 periplasmic folding chaperone; Provisional; Region: PRK10788 400667004397 Cupin; Region: Cupin_6; pfam12852 400667004398 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667004399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004400 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 400667004401 Fatty acid desaturase; Region: FA_desaturase; pfam00487 400667004402 Di-iron ligands [ion binding]; other site 400667004403 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667004404 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667004405 active site 400667004406 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667004407 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667004408 active site 400667004409 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 400667004410 ABC1 family; Region: ABC1; cl17513 400667004411 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 400667004412 putative deacylase active site [active] 400667004413 IucA / IucC family; Region: IucA_IucC; pfam04183 400667004414 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 400667004415 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 400667004416 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667004417 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667004418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004419 putative substrate translocation pore; other site 400667004420 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004421 IucA / IucC family; Region: IucA_IucC; pfam04183 400667004422 IucA / IucC family; Region: IucA_IucC; pfam04183 400667004423 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 400667004424 IucA / IucC family; Region: IucA_IucC; pfam04183 400667004425 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 400667004426 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 400667004427 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 400667004428 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667004429 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 400667004430 N-terminal plug; other site 400667004431 ligand-binding site [chemical binding]; other site 400667004432 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 400667004433 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 400667004434 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 400667004435 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 400667004436 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 400667004437 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 400667004438 motif II; other site 400667004439 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 400667004440 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 400667004441 GTP binding site [chemical binding]; other site 400667004442 Walker B motif; other site 400667004443 homotrimer interface [polypeptide binding]; other site 400667004444 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 400667004445 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 400667004446 putative dimer interface [polypeptide binding]; other site 400667004447 active site pocket [active] 400667004448 putative cataytic base [active] 400667004449 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 400667004450 catalytic core [active] 400667004451 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 400667004452 cobalamin synthase; Reviewed; Region: cobS; PRK00235 400667004453 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 400667004454 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 400667004455 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400667004456 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 400667004457 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 400667004458 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 400667004459 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 400667004460 N-terminal plug; other site 400667004461 ligand-binding site [chemical binding]; other site 400667004462 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 400667004463 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 400667004464 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 400667004465 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667004466 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 400667004467 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667004468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667004469 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 400667004470 Walker A/P-loop; other site 400667004471 ATP binding site [chemical binding]; other site 400667004472 Q-loop/lid; other site 400667004473 ABC transporter signature motif; other site 400667004474 Walker B; other site 400667004475 D-loop; other site 400667004476 H-loop/switch region; other site 400667004477 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 400667004478 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 400667004479 Walker A/P-loop; other site 400667004480 ATP binding site [chemical binding]; other site 400667004481 Q-loop/lid; other site 400667004482 ABC transporter signature motif; other site 400667004483 Walker B; other site 400667004484 D-loop; other site 400667004485 H-loop/switch region; other site 400667004486 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 400667004487 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 400667004488 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 400667004489 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 400667004490 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 400667004491 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 400667004492 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 400667004493 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 400667004494 eyelet of channel; other site 400667004495 trimer interface [polypeptide binding]; other site 400667004496 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 400667004497 nucleotide binding site/active site [active] 400667004498 HIT family signature motif; other site 400667004499 catalytic residue [active] 400667004500 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 400667004501 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667004502 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 400667004503 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 400667004504 homodimer interface [polypeptide binding]; other site 400667004505 substrate-cofactor binding pocket; other site 400667004506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667004507 catalytic residue [active] 400667004508 hypothetical protein; Validated; Region: PRK00153 400667004509 recombination protein RecR; Reviewed; Region: recR; PRK00076 400667004510 RecR protein; Region: RecR; pfam02132 400667004511 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 400667004512 putative active site [active] 400667004513 putative metal-binding site [ion binding]; other site 400667004514 tetramer interface [polypeptide binding]; other site 400667004515 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 400667004516 putative active site [active] 400667004517 putative substrate binding site [chemical binding]; other site 400667004518 catalytic site [active] 400667004519 HRDC domain; Region: HRDC; pfam00570 400667004520 YcgL domain; Region: YcgL; pfam05166 400667004521 MoxR-like ATPases [General function prediction only]; Region: COG0714 400667004522 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 400667004523 Walker B motif; other site 400667004524 arginine finger; other site 400667004525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 400667004526 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 400667004527 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 400667004528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667004529 catalytic residue [active] 400667004530 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400667004531 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 400667004532 S-adenosylmethionine binding site [chemical binding]; other site 400667004533 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 400667004534 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 400667004535 Tetramer interface [polypeptide binding]; other site 400667004536 active site 400667004537 FMN-binding site [chemical binding]; other site 400667004538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667004539 metal binding site [ion binding]; metal-binding site 400667004540 active site 400667004541 I-site; other site 400667004542 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 400667004543 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 400667004544 Radical SAM superfamily; Region: Radical_SAM; pfam04055 400667004545 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 400667004546 FeS/SAM binding site; other site 400667004547 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 400667004548 tetramer interface [polypeptide binding]; other site 400667004549 heterodimer interface [polypeptide binding]; other site 400667004550 TPP-binding site [chemical binding]; other site 400667004551 phosphorylation loop region [posttranslational modification] 400667004552 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 400667004553 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 400667004554 alpha subunit interface [polypeptide binding]; other site 400667004555 TPP binding site [chemical binding]; other site 400667004556 heterodimer interface [polypeptide binding]; other site 400667004557 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400667004558 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 400667004559 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 400667004560 E3 interaction surface; other site 400667004561 lipoyl attachment site [posttranslational modification]; other site 400667004562 e3 binding domain; Region: E3_binding; pfam02817 400667004563 e3 binding domain; Region: E3_binding; pfam02817 400667004564 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 400667004565 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 400667004566 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667004567 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400667004568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667004569 NAD(P) binding site [chemical binding]; other site 400667004570 active site 400667004571 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 400667004572 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 400667004573 catalytic Zn binding site [ion binding]; other site 400667004574 putative NAD(P) binding site [chemical binding]; other site 400667004575 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 400667004576 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 400667004577 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400667004578 Walker A motif; other site 400667004579 ATP binding site [chemical binding]; other site 400667004580 Walker B motif; other site 400667004581 arginine finger; other site 400667004582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 400667004583 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 400667004584 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400667004585 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 400667004586 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400667004587 EamA-like transporter family; Region: EamA; pfam00892 400667004588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004589 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667004590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004591 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667004592 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667004593 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400667004594 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667004595 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 400667004596 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 400667004597 Chromate transporter; Region: Chromate_transp; pfam02417 400667004598 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400667004599 UTRA domain; Region: UTRA; pfam07702 400667004600 putative oxidoreductase; Provisional; Region: PRK08275 400667004601 L-aspartate oxidase; Provisional; Region: PRK06175 400667004602 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 400667004603 Ferredoxin [Energy production and conversion]; Region: COG1146 400667004604 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 400667004605 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 400667004606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667004607 dimer interface [polypeptide binding]; other site 400667004608 conserved gate region; other site 400667004609 putative PBP binding loops; other site 400667004610 ABC-ATPase subunit interface; other site 400667004611 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 400667004612 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 400667004613 Q-loop/lid; other site 400667004614 ABC transporter signature motif; other site 400667004615 Walker B; other site 400667004616 D-loop; other site 400667004617 H-loop/switch region; other site 400667004618 HEAT repeats; Region: HEAT_2; pfam13646 400667004619 HEAT repeats; Region: HEAT_2; pfam13646 400667004620 HEAT repeats; Region: HEAT_2; pfam13646 400667004621 metabolite-proton symporter; Region: 2A0106; TIGR00883 400667004622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004623 putative substrate translocation pore; other site 400667004624 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667004625 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 400667004626 N-terminal plug; other site 400667004627 ligand-binding site [chemical binding]; other site 400667004628 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 400667004629 Aspartase; Region: Aspartase; cd01357 400667004630 active sites [active] 400667004631 tetramer interface [polypeptide binding]; other site 400667004632 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 400667004633 dimerization interface [polypeptide binding]; other site 400667004634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667004636 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 400667004637 substrate binding pocket [chemical binding]; other site 400667004638 dimerization interface [polypeptide binding]; other site 400667004639 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 400667004640 dimer interface [polypeptide binding]; other site 400667004641 active site 400667004642 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 400667004643 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 400667004644 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 400667004645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004646 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 400667004647 putative dimerization interface [polypeptide binding]; other site 400667004648 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 400667004649 DoxX; Region: DoxX; pfam07681 400667004650 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 400667004651 fructuronate transporter; Provisional; Region: PRK10034; cl15264 400667004652 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 400667004653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667004654 NAD(P) binding site [chemical binding]; other site 400667004655 active site 400667004656 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667004657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004658 benzoate transport; Region: 2A0115; TIGR00895 400667004659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004660 putative substrate translocation pore; other site 400667004661 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 400667004662 SnoaL-like domain; Region: SnoaL_2; pfam12680 400667004663 short chain dehydrogenase; Provisional; Region: PRK08265 400667004664 classical (c) SDRs; Region: SDR_c; cd05233 400667004665 NAD(P) binding site [chemical binding]; other site 400667004666 active site 400667004667 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 400667004668 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 400667004669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004670 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667004671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004672 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 400667004673 Phage X family; Region: Phage_X; pfam05155 400667004674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667004675 Q-loop/lid; other site 400667004676 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 400667004677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667004678 AAA domain; Region: AAA_21; pfam13304 400667004679 Walker A/P-loop; other site 400667004680 ATP binding site [chemical binding]; other site 400667004681 Q-loop/lid; other site 400667004682 ABC transporter signature motif; other site 400667004683 Walker B; other site 400667004684 D-loop; other site 400667004685 H-loop/switch region; other site 400667004686 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 400667004687 Protein export membrane protein; Region: SecD_SecF; cl14618 400667004688 Protein export membrane protein; Region: SecD_SecF; cl14618 400667004689 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 400667004690 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667004691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667004692 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400667004693 active site 400667004694 phosphorylation site [posttranslational modification] 400667004695 intermolecular recognition site; other site 400667004696 dimerization interface [polypeptide binding]; other site 400667004697 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 400667004698 DNA binding site [nucleotide binding] 400667004699 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 400667004700 dimerization interface [polypeptide binding]; other site 400667004701 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 400667004702 dimer interface [polypeptide binding]; other site 400667004703 phosphorylation site [posttranslational modification] 400667004704 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 400667004705 ATP binding site [chemical binding]; other site 400667004706 Mg2+ binding site [ion binding]; other site 400667004707 G-X-G motif; other site 400667004708 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667004709 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400667004710 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 400667004711 dimerization interface [polypeptide binding]; other site 400667004712 putative DNA binding site [nucleotide binding]; other site 400667004713 putative Zn2+ binding site [ion binding]; other site 400667004714 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400667004715 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667004716 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400667004717 classical (c) SDRs; Region: SDR_c; cd05233 400667004718 NAD(P) binding site [chemical binding]; other site 400667004719 active site 400667004720 classical (c) SDRs; Region: SDR_c; cd05233 400667004721 NAD(P) binding site [chemical binding]; other site 400667004722 active site 400667004723 PAAR motif; Region: PAAR_motif; pfam05488 400667004724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667004725 Coenzyme A binding pocket [chemical binding]; other site 400667004726 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 400667004727 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400667004728 non-specific DNA binding site [nucleotide binding]; other site 400667004729 salt bridge; other site 400667004730 sequence-specific DNA binding site [nucleotide binding]; other site 400667004731 Domain of unknown function (DUF955); Region: DUF955; cl01076 400667004732 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 400667004733 non-specific DNA binding site [nucleotide binding]; other site 400667004734 salt bridge; other site 400667004735 sequence-specific DNA binding site [nucleotide binding]; other site 400667004736 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 400667004737 HipA-like N-terminal domain; Region: HipA_N; pfam07805 400667004738 HipA-like C-terminal domain; Region: HipA_C; pfam07804 400667004739 Survival protein SurE; Region: SurE; cl00448 400667004740 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 400667004741 GH3 auxin-responsive promoter; Region: GH3; pfam03321 400667004742 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 400667004743 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004744 putative substrate translocation pore; other site 400667004745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004746 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 400667004747 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667004748 Amidase; Region: Amidase; pfam01425 400667004749 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400667004750 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 400667004751 DNA binding residues [nucleotide binding] 400667004752 dimerization interface [polypeptide binding]; other site 400667004753 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 400667004754 FAD binding site [chemical binding]; other site 400667004755 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 400667004756 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 400667004757 nudix motif; other site 400667004758 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 400667004759 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 400667004760 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 400667004761 active site 400667004762 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 400667004763 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667004764 active site 400667004765 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400667004766 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667004767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667004768 Coenzyme A binding pocket [chemical binding]; other site 400667004769 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400667004770 ABC transporter; Region: ABC_tran; pfam00005 400667004771 Q-loop/lid; other site 400667004772 ABC transporter signature motif; other site 400667004773 Walker B; other site 400667004774 D-loop; other site 400667004775 H-loop/switch region; other site 400667004776 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400667004777 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 400667004778 ABC-ATPase subunit interface; other site 400667004779 dimer interface [polypeptide binding]; other site 400667004780 putative PBP binding regions; other site 400667004781 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 400667004782 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 400667004783 intersubunit interface [polypeptide binding]; other site 400667004784 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 400667004785 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 400667004786 structural Zn binding site [ion binding]; other site 400667004787 dimer interface [polypeptide binding]; other site 400667004788 putative NAD(P) binding site [chemical binding]; other site 400667004789 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 400667004790 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400667004791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004793 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 400667004794 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400667004795 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004796 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667004797 putative substrate translocation pore; other site 400667004798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667004799 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 400667004800 active site 400667004801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667004803 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 400667004804 putative dimerization interface [polypeptide binding]; other site 400667004805 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 400667004806 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400667004807 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 400667004808 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400667004809 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400667004810 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400667004811 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400667004812 catalytic residues [active] 400667004813 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667004814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667004815 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 400667004816 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004817 putative substrate translocation pore; other site 400667004818 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 400667004819 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667004820 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667004821 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 400667004822 Protein of unknown function, DUF606; Region: DUF606; pfam04657 400667004823 Protein of unknown function, DUF606; Region: DUF606; pfam04657 400667004824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667004826 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 400667004827 putative effector binding pocket; other site 400667004828 dimerization interface [polypeptide binding]; other site 400667004829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004830 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667004831 putative substrate translocation pore; other site 400667004832 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 400667004833 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 400667004834 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400667004835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667004836 DNA-binding site [nucleotide binding]; DNA binding site 400667004837 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 400667004838 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 400667004839 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 400667004840 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 400667004841 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 400667004842 active site 400667004843 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 400667004846 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 400667004847 Sodium Bile acid symporter family; Region: SBF; cl17470 400667004848 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 400667004849 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667004850 acyl-activating enzyme (AAE) consensus motif; other site 400667004851 putative AMP binding site [chemical binding]; other site 400667004852 putative active site [active] 400667004853 putative CoA binding site [chemical binding]; other site 400667004854 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 400667004855 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667004856 active site 400667004857 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400667004858 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 400667004859 putative active site [active] 400667004860 putative catalytic site [active] 400667004861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667004862 NAD(P) binding site [chemical binding]; other site 400667004863 active site 400667004864 classical (c) SDRs; Region: SDR_c; cd05233 400667004865 NAD(P) binding site [chemical binding]; other site 400667004866 active site 400667004867 short chain dehydrogenase; Provisional; Region: PRK07035 400667004868 classical (c) SDRs; Region: SDR_c; cd05233 400667004869 NAD(P) binding site [chemical binding]; other site 400667004870 active site 400667004871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004872 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 400667004873 substrate binding pocket [chemical binding]; other site 400667004874 dimerization interface [polypeptide binding]; other site 400667004875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667004876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667004877 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 400667004878 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 400667004879 Predicted transcriptional regulator [Transcription]; Region: COG1959 400667004880 Transcriptional regulator; Region: Rrf2; pfam02082 400667004881 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 400667004882 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 400667004883 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 400667004884 potential catalytic triad [active] 400667004885 conserved cys residue [active] 400667004886 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400667004887 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 400667004888 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 400667004889 potential catalytic triad [active] 400667004890 conserved cys residue [active] 400667004891 RibD C-terminal domain; Region: RibD_C; cl17279 400667004892 Uncharacterized conserved protein [Function unknown]; Region: COG3268 400667004893 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400667004894 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 400667004895 putative active site [active] 400667004896 putative FMN binding site [chemical binding]; other site 400667004897 putative substrate binding site [chemical binding]; other site 400667004898 putative catalytic residue [active] 400667004899 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667004900 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400667004901 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400667004902 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 400667004903 dimer interface [polypeptide binding]; other site 400667004904 NADP binding site [chemical binding]; other site 400667004905 catalytic residues [active] 400667004906 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400667004907 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004908 D-galactonate transporter; Region: 2A0114; TIGR00893 400667004909 dihydroxy-acid dehydratase; Validated; Region: PRK06131 400667004910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667004911 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400667004912 DNA-binding site [nucleotide binding]; DNA binding site 400667004913 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400667004914 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 400667004915 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 400667004916 dimerization interface [polypeptide binding]; other site 400667004917 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 400667004918 metal binding site [ion binding]; metal-binding site 400667004919 substrate binding pocket [chemical binding]; other site 400667004920 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 400667004921 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 400667004922 dimer interface [polypeptide binding]; other site 400667004923 active site 400667004924 Coenzyme A transferase; Region: CoA_trans; cl17247 400667004925 Coenzyme A transferase; Region: CoA_trans; cl17247 400667004926 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 400667004927 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 400667004928 active site 400667004929 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667004930 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 400667004931 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 400667004932 active site 400667004933 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 400667004934 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400667004935 NAD(P) binding site [chemical binding]; other site 400667004936 catalytic residues [active] 400667004937 tyramine oxidase; Provisional; Region: tynA; PRK14696 400667004938 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 400667004939 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 400667004940 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 400667004941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667004942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667004943 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 400667004944 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400667004945 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 400667004946 FMN-binding pocket [chemical binding]; other site 400667004947 flavin binding motif; other site 400667004948 phosphate binding motif [ion binding]; other site 400667004949 beta-alpha-beta structure motif; other site 400667004950 NAD binding pocket [chemical binding]; other site 400667004951 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 400667004952 catalytic loop [active] 400667004953 iron binding site [ion binding]; other site 400667004954 classical (c) SDRs; Region: SDR_c; cd05233 400667004955 NAD(P) binding site [chemical binding]; other site 400667004956 active site 400667004957 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 400667004958 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 400667004959 putative alpha subunit interface [polypeptide binding]; other site 400667004960 putative active site [active] 400667004961 putative substrate binding site [chemical binding]; other site 400667004962 Fe binding site [ion binding]; other site 400667004963 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 400667004964 [2Fe-2S] cluster binding site [ion binding]; other site 400667004965 SnoaL-like domain; Region: SnoaL_4; pfam13577 400667004966 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667004967 active site 400667004968 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 400667004969 Amidase; Region: Amidase; cl11426 400667004970 Transcriptional regulators [Transcription]; Region: MarR; COG1846 400667004971 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 400667004972 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667004973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667004974 putative substrate translocation pore; other site 400667004975 outer membrane porin, OprD family; Region: OprD; pfam03573 400667004976 outer membrane porin, OprD family; Region: OprD; pfam03573 400667004977 short chain dehydrogenase; Provisional; Region: PRK08251 400667004978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667004979 NAD(P) binding site [chemical binding]; other site 400667004980 active site 400667004981 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 400667004982 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 400667004983 putative active site [active] 400667004984 ATP binding site [chemical binding]; other site 400667004985 putative substrate binding site [chemical binding]; other site 400667004986 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667004987 active site 400667004988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667004989 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 400667004990 substrate binding pocket [chemical binding]; other site 400667004991 dimerization interface [polypeptide binding]; other site 400667004992 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 400667004993 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 400667004994 Bacterial transcriptional regulator; Region: IclR; pfam01614 400667004995 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 400667004996 Predicted transporter component [General function prediction only]; Region: COG2391 400667004997 Predicted transporter component [General function prediction only]; Region: COG2391 400667004998 Sulphur transport; Region: Sulf_transp; pfam04143 400667004999 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 400667005000 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 400667005001 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 400667005002 Trp docking motif [polypeptide binding]; other site 400667005003 putative active site [active] 400667005004 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 400667005005 Right handed beta helix region; Region: Beta_helix; pfam13229 400667005006 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 400667005007 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 400667005008 active site 400667005009 catalytic residue [active] 400667005010 dimer interface [polypeptide binding]; other site 400667005011 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 400667005012 protocatechuate 3,4-dioxygenase, alpha subunit; Region: protocat_alph; TIGR02423 400667005013 active site 400667005014 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 400667005015 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 400667005016 active site 400667005017 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 400667005018 benzoate transport; Region: 2A0115; TIGR00895 400667005019 benzoate transport; Region: 2A0115; TIGR00895 400667005020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667005021 putative substrate translocation pore; other site 400667005022 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667005023 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 400667005024 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 400667005025 tetramer interface [polypeptide binding]; other site 400667005026 active site 400667005027 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 400667005028 active site 400667005029 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 400667005030 Coenzyme A transferase; Region: CoA_trans; cl17247 400667005031 Coenzyme A transferase; Region: CoA_trans; cl17247 400667005032 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 400667005033 substrate binding site; other site 400667005034 dimer interface; other site 400667005035 Septum formation initiator; Region: DivIC; cl17659 400667005036 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 400667005037 Predicted membrane protein [Function unknown]; Region: COG2323 400667005038 enolase; Provisional; Region: eno; PRK00077 400667005039 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 400667005040 dimer interface [polypeptide binding]; other site 400667005041 metal binding site [ion binding]; metal-binding site 400667005042 substrate binding pocket [chemical binding]; other site 400667005043 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 400667005044 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 400667005045 CTP synthetase; Validated; Region: pyrG; PRK05380 400667005046 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 400667005047 Catalytic site [active] 400667005048 active site 400667005049 UTP binding site [chemical binding]; other site 400667005050 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 400667005051 active site 400667005052 putative oxyanion hole; other site 400667005053 catalytic triad [active] 400667005054 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667005055 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 400667005056 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667005057 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 400667005058 active site 400667005059 catalytic triad [active] 400667005060 oxyanion hole [active] 400667005061 SnoaL-like domain; Region: SnoaL_2; pfam12680 400667005062 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 400667005063 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400667005064 active site 400667005065 FMN binding site [chemical binding]; other site 400667005066 2,4-decadienoyl-CoA binding site; other site 400667005067 catalytic residue [active] 400667005068 4Fe-4S cluster binding site [ion binding]; other site 400667005069 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 400667005070 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400667005071 Predicted transcriptional regulators [Transcription]; Region: COG1695 400667005072 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 400667005073 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667005074 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 400667005075 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 400667005076 hypothetical protein; Provisional; Region: PRK02237 400667005077 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 400667005078 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 400667005079 Walker A motif; other site 400667005080 ATP binding site [chemical binding]; other site 400667005081 Walker B motif; other site 400667005082 arginine finger; other site 400667005083 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 400667005084 Walker A motif; other site 400667005085 ATP binding site [chemical binding]; other site 400667005086 Walker B motif; other site 400667005087 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 400667005088 Uncharacterized conserved protein [Function unknown]; Region: COG2127 400667005089 Membrane-anchored protein predicted to be involved in regulation of amylopullulanase [Carbohydrate transport and metabolism]; Region: COG4945 400667005090 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 400667005091 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 400667005092 Protein of unknown function DUF45; Region: DUF45; pfam01863 400667005093 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 400667005094 dimer interface [polypeptide binding]; other site 400667005095 active site 400667005096 tetramer (dimer of dimers) interface [polypeptide binding]; other site 400667005097 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 400667005098 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667005099 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 400667005100 putative Ile/Val binding site [chemical binding]; other site 400667005101 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 400667005102 putative Ile/Val binding site [chemical binding]; other site 400667005103 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 400667005104 TrkA-N domain; Region: TrkA_N; pfam02254 400667005105 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 400667005106 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 400667005107 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 400667005108 dimerization interface [polypeptide binding]; other site 400667005109 substrate binding site [chemical binding]; other site 400667005110 active site 400667005111 calcium binding site [ion binding]; other site 400667005112 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 400667005113 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 400667005114 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400667005115 Peptidase M16C associated; Region: M16C_assoc; pfam08367 400667005116 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400667005117 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667005118 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 400667005119 N-terminal plug; other site 400667005120 ligand-binding site [chemical binding]; other site 400667005121 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 400667005122 substrate binding site [chemical binding]; other site 400667005123 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400667005124 ATP binding site [chemical binding]; other site 400667005125 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 400667005126 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 400667005127 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 400667005128 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 400667005129 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 400667005130 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; pfam09600 400667005131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667005132 Coenzyme A binding pocket [chemical binding]; other site 400667005133 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 400667005134 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 400667005135 dimer interface [polypeptide binding]; other site 400667005136 FMN binding site [chemical binding]; other site 400667005137 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 400667005138 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 400667005139 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 400667005140 P loop; other site 400667005141 GTP binding site [chemical binding]; other site 400667005142 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 400667005143 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 400667005144 FOG: CBS domain [General function prediction only]; Region: COG0517 400667005145 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 400667005146 inhibitor-cofactor binding pocket; inhibition site 400667005147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667005148 catalytic residue [active] 400667005149 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 400667005150 putative GSH binding site [chemical binding]; other site 400667005151 catalytic residues [active] 400667005152 replication factor-a protein 1 (rpa1); Region: rpa1; TIGR00617 400667005153 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 400667005154 putative effector binding pocket; other site 400667005155 putative dimerization interface [polypeptide binding]; other site 400667005156 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 400667005157 active site 400667005158 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 400667005159 Domain of unknown function (DUF336); Region: DUF336; cl01249 400667005160 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400667005161 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667005162 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 400667005163 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 400667005164 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 400667005165 dimerization domain swap beta strand [polypeptide binding]; other site 400667005166 regulatory protein interface [polypeptide binding]; other site 400667005167 active site 400667005168 regulatory phosphorylation site [posttranslational modification]; other site 400667005169 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 400667005170 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 400667005171 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 400667005172 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 400667005173 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 400667005174 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 400667005175 putative substrate binding site [chemical binding]; other site 400667005176 putative ATP binding site [chemical binding]; other site 400667005177 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 400667005178 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 400667005179 active site 400667005180 P-loop; other site 400667005181 phosphorylation site [posttranslational modification] 400667005182 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 400667005183 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400667005184 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 400667005185 putative DNA binding site [nucleotide binding]; other site 400667005186 putative Zn2+ binding site [ion binding]; other site 400667005187 PAS fold; Region: PAS_4; pfam08448 400667005188 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 400667005189 putative active site [active] 400667005190 heme pocket [chemical binding]; other site 400667005191 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667005192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667005193 metal binding site [ion binding]; metal-binding site 400667005194 active site 400667005195 I-site; other site 400667005196 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 400667005197 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 400667005198 Ligand Binding Site [chemical binding]; other site 400667005199 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 400667005200 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 400667005201 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 400667005202 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 400667005203 Bacitracin resistance protein BacA; Region: BacA; cl00858 400667005204 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400667005205 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 400667005206 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 400667005207 calcium binding site 2 [ion binding]; other site 400667005208 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 400667005209 active site 400667005210 catalytic triad [active] 400667005211 calcium binding site 1 [ion binding]; other site 400667005212 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667005213 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 400667005214 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 400667005215 kynureninase; Region: kynureninase; TIGR01814 400667005216 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667005217 catalytic residue [active] 400667005218 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 400667005219 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 400667005220 putative DNA binding site [nucleotide binding]; other site 400667005221 putative Zn2+ binding site [ion binding]; other site 400667005222 AsnC family; Region: AsnC_trans_reg; pfam01037 400667005223 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400667005224 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400667005225 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 400667005226 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 400667005227 motif II; other site 400667005228 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 400667005229 recombinase A; Provisional; Region: recA; PRK09354 400667005230 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 400667005231 hexamer interface [polypeptide binding]; other site 400667005232 Walker A motif; other site 400667005233 ATP binding site [chemical binding]; other site 400667005234 Walker B motif; other site 400667005235 recombination regulator RecX; Reviewed; Region: recX; PRK00117 400667005236 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 400667005237 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 400667005238 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 400667005239 active site 400667005240 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 400667005241 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 400667005242 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 400667005243 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 400667005244 trimer interface [polypeptide binding]; other site 400667005245 active site 400667005246 UDP-GlcNAc binding site [chemical binding]; other site 400667005247 lipid binding site [chemical binding]; lipid-binding site 400667005248 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 400667005249 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 400667005250 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400667005251 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400667005252 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400667005253 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400667005254 Surface antigen; Region: Bac_surface_Ag; pfam01103 400667005255 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 400667005256 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 400667005257 protein binding site [polypeptide binding]; other site 400667005258 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 400667005259 protein binding site [polypeptide binding]; other site 400667005260 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 400667005261 putative substrate binding region [chemical binding]; other site 400667005262 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 400667005263 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 400667005264 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 400667005265 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 400667005266 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 400667005267 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 400667005268 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 400667005269 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 400667005270 putative FPP binding hydrophobic cleft; other site 400667005271 dimer interface [polypeptide binding]; other site 400667005272 putative IPP diphosphate binding site; other site 400667005273 ribosome recycling factor; Reviewed; Region: frr; PRK00083 400667005274 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 400667005275 hinge region; other site 400667005276 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 400667005277 putative nucleotide binding site [chemical binding]; other site 400667005278 uridine monophosphate binding site [chemical binding]; other site 400667005279 homohexameric interface [polypeptide binding]; other site 400667005280 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 400667005281 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 400667005282 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 400667005283 FeS/SAM binding site; other site 400667005284 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 400667005285 dimer interface [polypeptide binding]; other site 400667005286 phosphorylation site [posttranslational modification] 400667005287 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 400667005288 ATP binding site [chemical binding]; other site 400667005289 Mg2+ binding site [ion binding]; other site 400667005290 G-X-G motif; other site 400667005291 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 400667005292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667005293 active site 400667005294 phosphorylation site [posttranslational modification] 400667005295 intermolecular recognition site; other site 400667005296 dimerization interface [polypeptide binding]; other site 400667005297 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 400667005298 Walker A motif; other site 400667005299 ATP binding site [chemical binding]; other site 400667005300 Walker B motif; other site 400667005301 arginine finger; other site 400667005302 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400667005303 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667005304 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667005305 ornithine carbamoyltransferase; Provisional; Region: PRK00779 400667005306 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 400667005307 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 400667005308 Putative phosphatase (DUF442); Region: DUF442; cl17385 400667005309 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 400667005310 homotrimer interaction site [polypeptide binding]; other site 400667005311 zinc binding site [ion binding]; other site 400667005312 CDP-binding sites; other site 400667005313 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 400667005314 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400667005315 fumarate hydratase; Reviewed; Region: fumC; PRK00485 400667005316 Class II fumarases; Region: Fumarase_classII; cd01362 400667005317 active site 400667005318 tetramer interface [polypeptide binding]; other site 400667005319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667005320 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 400667005321 NAD(P) binding site [chemical binding]; other site 400667005322 active site 400667005323 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 400667005324 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 400667005325 DsrC like protein; Region: DsrC; pfam04358 400667005326 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400667005327 EamA-like transporter family; Region: EamA; cl17759 400667005328 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 400667005329 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 400667005330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667005331 homodimer interface [polypeptide binding]; other site 400667005332 catalytic residue [active] 400667005333 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667005334 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667005335 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 400667005336 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 400667005337 dimer interface [polypeptide binding]; other site 400667005338 putative functional site; other site 400667005339 putative MPT binding site; other site 400667005340 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 400667005341 MoaC family. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor...; Region: MoaC; cl00242 400667005342 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 400667005343 MPT binding site; other site 400667005344 trimer interface [polypeptide binding]; other site 400667005345 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 400667005346 MoaE homodimer interface [polypeptide binding]; other site 400667005347 MoaD interaction [polypeptide binding]; other site 400667005348 active site residues [active] 400667005349 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 400667005350 FeS/SAM binding site; other site 400667005351 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 400667005352 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 400667005353 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 400667005354 molybdopterin cofactor binding site; other site 400667005355 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 400667005356 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 400667005357 putative molybdopterin cofactor binding site; other site 400667005358 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 400667005359 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 400667005360 GTP binding site; other site 400667005361 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 400667005362 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 400667005363 molybdopterin cofactor binding site; other site 400667005364 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 400667005365 molybdopterin cofactor binding site; other site 400667005366 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 400667005367 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 400667005368 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 400667005369 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 400667005370 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667005371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667005372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 400667005373 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667005374 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667005375 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400667005376 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 400667005377 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 400667005378 ANTAR domain; Region: ANTAR; pfam03861 400667005379 NMT1-like family; Region: NMT1_2; pfam13379 400667005380 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 400667005381 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 400667005382 DNA binding site [nucleotide binding] 400667005383 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 400667005384 Dehydroquinase class II; Region: DHquinase_II; pfam01220 400667005385 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 400667005386 trimer interface [polypeptide binding]; other site 400667005387 active site 400667005388 dimer interface [polypeptide binding]; other site 400667005389 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 400667005390 carboxyltransferase (CT) interaction site; other site 400667005391 biotinylation site [posttranslational modification]; other site 400667005392 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 400667005393 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667005394 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400667005395 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 400667005396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667005397 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 400667005398 putative substrate translocation pore; other site 400667005399 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 400667005400 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 400667005401 DNA binding site [nucleotide binding] 400667005402 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 400667005403 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 400667005404 catalytic residue [active] 400667005405 Phage-related minor tail protein [Function unknown]; Region: COG5281 400667005406 tape measure domain; Region: tape_meas_nterm; TIGR02675 400667005407 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 400667005408 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 400667005409 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 400667005410 YcfA-like protein; Region: YcfA; pfam07927 400667005411 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 400667005412 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 400667005413 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 400667005414 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 400667005415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 400667005416 Terminase-like family; Region: Terminase_6; pfam03237 400667005417 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 400667005418 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 400667005419 BRO family, N-terminal domain; Region: Bro-N; smart01040 400667005420 Capsid protein (F protein); Region: Phage_F; cl15846 400667005421 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 400667005422 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 400667005423 cofactor binding site; other site 400667005424 DNA binding site [nucleotide binding] 400667005425 substrate interaction site [chemical binding]; other site 400667005426 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 400667005427 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 400667005428 Catalytic site [active] 400667005429 AAA domain; Region: AAA_24; pfam13479 400667005430 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 400667005431 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 400667005432 active site 400667005433 Int/Topo IB signature motif; other site 400667005434 catalytic residues [active] 400667005435 DNA binding site [nucleotide binding] 400667005436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667005437 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 400667005438 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 400667005439 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 400667005440 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 400667005441 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 400667005442 active site 400667005443 substrate binding site [chemical binding]; other site 400667005444 3Fe-4S cluster binding site [ion binding]; other site 400667005445 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 400667005446 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400667005447 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 400667005448 putative active site [active] 400667005449 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 400667005450 FAD binding domain; Region: FAD_binding_4; pfam01565 400667005451 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 400667005452 Low molecular weight phosphatase family; Region: LMWPc; cd00115 400667005453 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 400667005454 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 400667005455 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400667005456 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 400667005457 putative active site [active] 400667005458 metal binding site [ion binding]; metal-binding site 400667005459 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 400667005460 active site 400667005461 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 400667005462 Phosphoesterase family; Region: Phosphoesterase; pfam04185 400667005463 Domain of unknown function (DUF756); Region: DUF756; pfam05506 400667005464 Domain of unknown function (DUF756); Region: DUF756; pfam05506 400667005465 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 400667005466 DNA polymerase III subunit delta'; Validated; Region: PRK08485 400667005467 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 400667005468 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 400667005469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667005470 TetR family transcriptional regulator; Provisional; Region: PRK14996 400667005471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667005472 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 400667005473 Beta-lactamase; Region: Beta-lactamase; pfam00144 400667005474 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 400667005475 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 400667005476 active site 2 [active] 400667005477 active site 1 [active] 400667005478 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 400667005479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667005480 NAD(P) binding site [chemical binding]; other site 400667005481 active site 400667005482 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 400667005483 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 400667005484 dimer interface [polypeptide binding]; other site 400667005485 active site 400667005486 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 400667005487 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 400667005488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667005489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667005490 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 400667005491 dimerization interface [polypeptide binding]; other site 400667005492 transaldolase-like protein; Provisional; Region: PTZ00411 400667005493 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 400667005494 active site 400667005495 dimer interface [polypeptide binding]; other site 400667005496 catalytic residue [active] 400667005497 leucine export protein LeuE; Provisional; Region: PRK10958 400667005498 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 400667005499 AsnC family; Region: AsnC_trans_reg; pfam01037 400667005500 benzoate transporter; Region: benE; TIGR00843 400667005501 magnesium transport protein MgtC; Provisional; Region: PRK15385 400667005502 MgtC family; Region: MgtC; pfam02308 400667005503 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 400667005504 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 400667005505 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 400667005506 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 400667005507 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 400667005508 RDD family; Region: RDD; pfam06271 400667005509 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 400667005510 Ligand Binding Site [chemical binding]; other site 400667005511 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667005512 ABC transporter; Region: ABC_tran_2; pfam12848 400667005513 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13540 400667005514 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667005515 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 400667005516 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 400667005517 ligand-binding site [chemical binding]; other site 400667005518 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 400667005519 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667005520 Coenzyme A binding pocket [chemical binding]; other site 400667005521 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400667005522 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400667005523 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 400667005524 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 400667005525 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 400667005526 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400667005527 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 400667005528 putative DNA binding site [nucleotide binding]; other site 400667005529 putative Zn2+ binding site [ion binding]; other site 400667005530 AsnC family; Region: AsnC_trans_reg; pfam01037 400667005531 chorismate mutase; Provisional; Region: PRK08055 400667005532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667005533 active site 400667005534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667005535 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 400667005536 NAD(P) binding site [chemical binding]; other site 400667005537 active site 400667005538 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400667005539 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 400667005540 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 400667005541 N-terminal domain interface [polypeptide binding]; other site 400667005542 Spore Coat Protein U domain; Region: SCPU; pfam05229 400667005543 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 400667005544 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 400667005545 PapC C-terminal domain; Region: PapC_C; pfam13953 400667005546 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 400667005547 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 400667005548 Spore Coat Protein U domain; Region: SCPU; pfam05229 400667005549 aminopeptidase N; Provisional; Region: pepN; PRK14015 400667005550 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 400667005551 active site 400667005552 Zn binding site [ion binding]; other site 400667005553 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 400667005554 multimerization interface [polypeptide binding]; other site 400667005555 ATP binding site [chemical binding]; other site 400667005556 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 400667005557 trimer interface [polypeptide binding]; other site 400667005558 putative substrate binding pocket [chemical binding]; other site 400667005559 AAA domain; Region: AAA_30; pfam13604 400667005560 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400667005561 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 400667005562 active site 400667005563 metal binding site [ion binding]; metal-binding site 400667005564 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 400667005565 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400667005566 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 400667005567 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 400667005568 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400667005569 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400667005570 NAD(P) binding site [chemical binding]; other site 400667005571 catalytic residues [active] 400667005572 ethanolamine permease; Region: 2A0305; TIGR00908 400667005573 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 400667005574 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 400667005575 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 400667005576 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 400667005577 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 400667005578 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 400667005579 catalytic triad [active] 400667005580 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 400667005581 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400667005582 active site 400667005583 HIGH motif; other site 400667005584 nucleotide binding site [chemical binding]; other site 400667005585 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 400667005586 KMSKS motif; other site 400667005587 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 400667005588 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 400667005589 active site 400667005590 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 400667005591 putative active site [active] 400667005592 putative metal binding site [ion binding]; other site 400667005593 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 400667005594 dimer interface [polypeptide binding]; other site 400667005595 FMN binding site [chemical binding]; other site 400667005596 EamA-like transporter family; Region: EamA; pfam00892 400667005597 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 400667005598 IPP transferase; Region: IPPT; pfam01715 400667005599 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 400667005600 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 400667005601 ATP binding site [chemical binding]; other site 400667005602 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 400667005603 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 400667005604 ATP binding site [chemical binding]; other site 400667005605 Mg2+ binding site [ion binding]; other site 400667005606 G-X-G motif; other site 400667005607 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 400667005608 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 400667005609 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 400667005610 probable active site [active] 400667005611 RelB antitoxin; Region: RelB; cl01171 400667005612 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400667005613 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667005614 Coenzyme A binding pocket [chemical binding]; other site 400667005615 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 400667005616 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 400667005617 active site 400667005618 uracil binding [chemical binding]; other site 400667005619 Protein of unknown function (DUF441); Region: DUF441; pfam04284 400667005620 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 400667005621 putative dimerization interface [polypeptide binding]; other site 400667005622 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 400667005623 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400667005624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667005625 putative substrate translocation pore; other site 400667005626 Ion transport protein; Region: Ion_trans; pfam00520 400667005627 Ion channel; Region: Ion_trans_2; pfam07885 400667005628 CCC1-related family of proteins; Region: CCC1_like; cl00278 400667005629 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 400667005630 ligand binding site [chemical binding]; other site 400667005631 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 400667005632 substrate binding site [chemical binding]; other site 400667005633 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 400667005634 substrate binding site [chemical binding]; other site 400667005635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 400667005636 Family of unknown function (DUF490); Region: DUF490; pfam04357 400667005637 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400667005638 Surface antigen; Region: Bac_surface_Ag; pfam01103 400667005639 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 400667005640 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 400667005641 diiron binding motif [ion binding]; other site 400667005642 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 400667005643 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 400667005644 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 400667005645 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400667005646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667005647 active site 400667005648 phosphorylation site [posttranslational modification] 400667005649 intermolecular recognition site; other site 400667005650 dimerization interface [polypeptide binding]; other site 400667005651 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 400667005652 DNA binding site [nucleotide binding] 400667005653 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 400667005654 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 400667005655 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 400667005656 Ligand Binding Site [chemical binding]; other site 400667005657 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 400667005658 dimer interface [polypeptide binding]; other site 400667005659 phosphorylation site [posttranslational modification] 400667005660 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 400667005661 ATP binding site [chemical binding]; other site 400667005662 Mg2+ binding site [ion binding]; other site 400667005663 G-X-G motif; other site 400667005664 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 400667005665 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 400667005666 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 400667005667 Soluble P-type ATPase [General function prediction only]; Region: COG4087 400667005668 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 400667005669 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 400667005670 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cl00233 400667005671 catalytic center binding site [active] 400667005672 ATP binding site [chemical binding]; other site 400667005673 Dihydroneopterin aldolase; Region: FolB; pfam02152 400667005674 active site 400667005675 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 400667005676 ABC1 family; Region: ABC1; cl17513 400667005677 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 400667005678 substrate binding site [chemical binding]; other site 400667005679 activation loop (A-loop); other site 400667005680 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 400667005681 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 400667005682 ATP binding site [chemical binding]; other site 400667005683 substrate interface [chemical binding]; other site 400667005684 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 400667005685 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 400667005686 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667005687 acyl-activating enzyme (AAE) consensus motif; other site 400667005688 AMP binding site [chemical binding]; other site 400667005689 active site 400667005690 CoA binding site [chemical binding]; other site 400667005691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667005692 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667005693 active site 400667005694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667005695 NAD(P) binding site [chemical binding]; other site 400667005696 active site 400667005697 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667005698 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667005699 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400667005700 SurA N-terminal domain; Region: SurA_N; pfam09312 400667005701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667005702 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 400667005703 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 400667005704 This domain is found in peptide chain release factors; Region: PCRF; smart00937 400667005705 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 400667005706 RF-1 domain; Region: RF-1; pfam00472 400667005707 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 400667005708 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 400667005709 potential catalytic triad [active] 400667005710 conserved cys residue [active] 400667005711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667005712 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 400667005713 putative effector binding pocket; other site 400667005714 dimerization interface [polypeptide binding]; other site 400667005715 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 400667005716 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 400667005717 N-glycosyltransferase; Provisional; Region: PRK11204 400667005718 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 400667005719 DXD motif; other site 400667005720 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 400667005721 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 400667005722 putative active site [active] 400667005723 putative metal binding site [ion binding]; other site 400667005724 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 400667005725 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 400667005726 binding surface 400667005727 TPR motif; other site 400667005728 PEP synthetase regulatory protein; Provisional; Region: PRK05339 400667005729 phosphoenolpyruvate synthase; Validated; Region: PRK06464 400667005730 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 400667005731 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 400667005732 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 400667005733 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 400667005734 RDD family; Region: RDD; pfam06271 400667005735 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 400667005736 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 400667005737 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 400667005738 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 400667005739 D-pathway; other site 400667005740 Putative ubiquinol binding site [chemical binding]; other site 400667005741 Low-spin heme (heme b) binding site [chemical binding]; other site 400667005742 Putative water exit pathway; other site 400667005743 Binuclear center (heme o3/CuB) [ion binding]; other site 400667005744 K-pathway; other site 400667005745 Putative proton exit pathway; other site 400667005746 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 400667005747 Subunit III/IV interface [polypeptide binding]; other site 400667005748 Subunit I/III interface [polypeptide binding]; other site 400667005749 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 400667005750 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 400667005751 UbiA prenyltransferase family; Region: UbiA; pfam01040 400667005752 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 400667005753 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 400667005754 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 400667005755 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 400667005756 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 400667005757 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 400667005758 replicative DNA helicase; Region: DnaB; TIGR00665 400667005759 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 400667005760 Walker B motif; other site 400667005761 ATP binding site [chemical binding]; other site 400667005762 DNA binding loops [nucleotide binding] 400667005763 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 400667005764 active site 400667005765 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667005766 alanine racemase; Region: alr; TIGR00492 400667005767 substrate binding site [chemical binding]; other site 400667005768 catalytic residues [active] 400667005769 dimer interface [polypeptide binding]; other site 400667005770 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 400667005771 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 400667005772 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 400667005773 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 400667005774 Uncharacterized conserved protein [Function unknown]; Region: COG2308 400667005775 WYL domain; Region: WYL; pfam13280 400667005776 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 400667005777 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 400667005778 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 400667005779 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 400667005780 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 400667005781 S-adenosylmethionine binding site [chemical binding]; other site 400667005782 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 400667005783 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 400667005784 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 400667005785 dimer interface [polypeptide binding]; other site 400667005786 putative catalytic residues [active] 400667005787 purine monophosphate binding site [chemical binding]; other site 400667005788 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 400667005789 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 400667005790 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 400667005791 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 400667005792 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 400667005793 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 400667005794 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 400667005795 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 400667005796 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 400667005797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667005798 Q-loop/lid; other site 400667005799 ABC transporter signature motif; other site 400667005800 Walker B; other site 400667005801 D-loop; other site 400667005802 H-loop/switch region; other site 400667005803 NIL domain; Region: NIL; pfam09383 400667005804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667005805 dimer interface [polypeptide binding]; other site 400667005806 conserved gate region; other site 400667005807 ABC-ATPase subunit interface; other site 400667005808 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 400667005809 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667005810 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 400667005811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667005812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667005813 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 400667005814 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667005815 Coenzyme A binding pocket [chemical binding]; other site 400667005816 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 400667005817 aromatic amino acid exporter; Provisional; Region: PRK11689 400667005818 EamA-like transporter family; Region: EamA; pfam00892 400667005819 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 400667005820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 400667005821 Protein of unknown function (DUF330); Region: DUF330; pfam03886 400667005822 mce related protein; Region: MCE; pfam02470 400667005823 mce related protein; Region: MCE; pfam02470 400667005824 mce related protein; Region: MCE; pfam02470 400667005825 Paraquat-inducible protein A; Region: PqiA; pfam04403 400667005826 Paraquat-inducible protein A; Region: PqiA; pfam04403 400667005827 EamA-like transporter family; Region: EamA; pfam00892 400667005828 EamA-like transporter family; Region: EamA; pfam00892 400667005829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400667005830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400667005831 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400667005832 Zn2+ binding site [ion binding]; other site 400667005833 Mg2+ binding site [ion binding]; other site 400667005834 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_14; cd04672 400667005835 nudix motif; other site 400667005836 metabolite-proton symporter; Region: 2A0106; TIGR00883 400667005837 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667005838 putative substrate translocation pore; other site 400667005839 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 400667005840 Spore Coat Protein U domain; Region: SCPU; cl02253 400667005841 Spore Coat Protein U domain; Region: SCPU; pfam05229 400667005842 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 400667005843 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 400667005844 PapC C-terminal domain; Region: PapC_C; pfam13953 400667005845 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 400667005846 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 400667005847 Spore Coat Protein U domain; Region: SCPU; pfam05229 400667005848 Spore Coat Protein U domain; Region: SCPU; cl02253 400667005849 Spore Coat Protein U domain; Region: SCPU; pfam05229 400667005850 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400667005851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667005852 DNA-binding site [nucleotide binding]; DNA binding site 400667005853 FCD domain; Region: FCD; pfam07729 400667005854 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 400667005855 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 400667005856 Walker A motif; other site 400667005857 ATP binding site [chemical binding]; other site 400667005858 Walker B motif; other site 400667005859 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 400667005860 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 400667005861 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667005862 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400667005863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667005864 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667005865 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667005866 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667005867 Sensors of blue-light using FAD; Region: BLUF; pfam04940 400667005868 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 400667005869 active site 400667005870 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400667005871 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 400667005872 S-adenosylmethionine binding site [chemical binding]; other site 400667005873 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 400667005874 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667005875 active site 400667005876 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 400667005877 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 400667005878 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 400667005879 tetrameric interface [polypeptide binding]; other site 400667005880 NAD binding site [chemical binding]; other site 400667005881 catalytic residues [active] 400667005882 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 400667005883 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667005884 catalytic residue [active] 400667005885 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 400667005886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667005887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667005888 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 400667005889 dimerization interface [polypeptide binding]; other site 400667005890 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 400667005891 substrate binding site [chemical binding]; other site 400667005892 activation loop (A-loop); other site 400667005893 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 400667005894 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 400667005895 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 400667005896 active site 400667005897 nucleophile elbow; other site 400667005898 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 400667005899 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 400667005900 Walker A motif; other site 400667005901 ATP binding site [chemical binding]; other site 400667005902 Walker B motif; other site 400667005903 UGMP family protein; Validated; Region: PRK09604 400667005904 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 400667005905 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 400667005906 Yqey-like protein; Region: YqeY; pfam09424 400667005907 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 400667005908 Peptidase family M48; Region: Peptidase_M48; cl12018 400667005909 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 400667005910 dimerization interface [polypeptide binding]; other site 400667005911 ligand binding site [chemical binding]; other site 400667005912 NADP binding site [chemical binding]; other site 400667005913 catalytic site [active] 400667005914 Peptidase family M48; Region: Peptidase_M48; cl12018 400667005915 amidophosphoribosyltransferase; Provisional; Region: PRK09246 400667005916 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 400667005917 active site 400667005918 tetramer interface [polypeptide binding]; other site 400667005919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667005920 active site 400667005921 Colicin V production protein; Region: Colicin_V; pfam02674 400667005922 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 400667005923 quinone interaction residues [chemical binding]; other site 400667005924 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 400667005925 active site 400667005926 catalytic residues [active] 400667005927 FMN binding site [chemical binding]; other site 400667005928 substrate binding site [chemical binding]; other site 400667005929 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 400667005930 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 400667005931 GspL periplasmic domain; Region: GspL_C; cl14909 400667005932 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 400667005933 catalytic core [active] 400667005934 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 400667005935 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 400667005936 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 400667005937 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 400667005938 DEAD-like helicases superfamily; Region: DEXDc; smart00487 400667005939 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 400667005940 ATP binding site [chemical binding]; other site 400667005941 Mg++ binding site [ion binding]; other site 400667005942 motif III; other site 400667005943 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 400667005944 nucleotide binding region [chemical binding]; other site 400667005945 ATP-binding site [chemical binding]; other site 400667005946 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 400667005947 DNA-binding site [nucleotide binding]; DNA binding site 400667005948 RNA-binding motif; other site 400667005949 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 400667005950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400667005951 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 400667005952 DNA binding residues [nucleotide binding] 400667005953 Protein of unknown function (DUF423); Region: DUF423; pfam04241 400667005954 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 400667005955 thiS-thiF/thiG interaction site; other site 400667005956 thiazole synthase; Reviewed; Region: thiG; PRK00208 400667005957 phosphate binding site [ion binding]; other site 400667005958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 400667005959 hypothetical protein; Validated; Region: PRK02101 400667005960 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 400667005961 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 400667005962 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 400667005963 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400667005964 Walker A motif; other site 400667005965 ATP binding site [chemical binding]; other site 400667005966 Walker B motif; other site 400667005967 arginine finger; other site 400667005968 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 400667005969 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 400667005970 hypothetical protein; Reviewed; Region: PRK09588 400667005971 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 400667005972 oligomer interface [polypeptide binding]; other site 400667005973 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 400667005974 RNA 3'-phosphate cyclase; Region: RNA_3prim_cycl; TIGR03399 400667005975 putative active site [active] 400667005976 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 400667005977 metal binding site [ion binding]; metal-binding site 400667005978 dimer interface [polypeptide binding]; other site 400667005979 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 400667005980 prephenate dehydrogenase; Validated; Region: PRK08507 400667005981 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 400667005982 hinge; other site 400667005983 active site 400667005984 Chorismate mutase type II; Region: CM_2; cl00693 400667005985 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 400667005986 Prephenate dehydratase; Region: PDT; pfam00800 400667005987 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 400667005988 putative L-Phe binding site [chemical binding]; other site 400667005989 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 400667005990 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667005991 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667005992 active site 400667005993 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 400667005994 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667005995 hypothetical protein; Validated; Region: PRK09071 400667005996 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 400667005997 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 400667005998 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 400667005999 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 400667006000 Transglycosylase; Region: Transgly; pfam00912 400667006001 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 400667006002 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 400667006003 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 400667006004 hypothetical protein; Provisional; Region: PRK08999 400667006005 active site 400667006006 8-oxo-dGMP binding site [chemical binding]; other site 400667006007 nudix motif; other site 400667006008 metal binding site [ion binding]; metal-binding site 400667006009 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 400667006010 thiamine phosphate binding site [chemical binding]; other site 400667006011 active site 400667006012 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400667006013 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 400667006014 dimer interface [polypeptide binding]; other site 400667006015 phosphorylation site [posttranslational modification] 400667006016 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 400667006017 ATP binding site [chemical binding]; other site 400667006018 Mg2+ binding site [ion binding]; other site 400667006019 G-X-G motif; other site 400667006020 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400667006021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667006022 active site 400667006023 dimerization interface [polypeptide binding]; other site 400667006024 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 400667006025 DNA binding site [nucleotide binding] 400667006026 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 400667006027 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 400667006028 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 400667006029 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 400667006030 Walker A motif; other site 400667006031 ATP binding site [chemical binding]; other site 400667006032 Walker B motif; other site 400667006033 Predicted membrane protein [Function unknown]; Region: COG3174 400667006034 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 400667006035 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 400667006036 homodimer interaction site [polypeptide binding]; other site 400667006037 cofactor binding site; other site 400667006038 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400667006039 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 400667006040 FAD binding pocket [chemical binding]; other site 400667006041 FAD binding motif [chemical binding]; other site 400667006042 phosphate binding motif [ion binding]; other site 400667006043 beta-alpha-beta structure motif; other site 400667006044 NAD binding pocket [chemical binding]; other site 400667006045 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 400667006046 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 400667006047 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 400667006048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667006049 DNA-binding site [nucleotide binding]; DNA binding site 400667006050 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 400667006051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006052 homodimer interface [polypeptide binding]; other site 400667006053 catalytic residue [active] 400667006054 putative protease; Provisional; Region: PRK15452 400667006055 Peptidase family U32; Region: Peptidase_U32; pfam01136 400667006056 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 400667006057 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 400667006058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667006059 Q-loop/lid; other site 400667006060 ABC transporter signature motif; other site 400667006061 Walker B; other site 400667006062 D-loop; other site 400667006063 H-loop/switch region; other site 400667006064 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400667006065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667006066 dimer interface [polypeptide binding]; other site 400667006067 conserved gate region; other site 400667006068 putative PBP binding loops; other site 400667006069 ABC-ATPase subunit interface; other site 400667006070 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400667006071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667006072 putative PBP binding loops; other site 400667006073 dimer interface [polypeptide binding]; other site 400667006074 ABC-ATPase subunit interface; other site 400667006075 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 400667006076 substrate binding pocket [chemical binding]; other site 400667006077 membrane-bound complex binding site; other site 400667006078 hinge residues; other site 400667006079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667006080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667006081 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 400667006082 putative effector binding pocket; other site 400667006083 putative dimerization interface [polypeptide binding]; other site 400667006084 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400667006085 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667006086 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667006087 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 400667006088 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 400667006089 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 400667006090 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 400667006091 dimer interface [polypeptide binding]; other site 400667006092 active site 400667006093 glycine-pyridoxal phosphate binding site [chemical binding]; other site 400667006094 folate binding site [chemical binding]; other site 400667006095 Secretory lipase; Region: LIP; pfam03583 400667006096 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 400667006097 active site 400667006098 substrate binding site [chemical binding]; other site 400667006099 catalytic site [active] 400667006100 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 400667006101 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 400667006102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667006103 Walker A/P-loop; other site 400667006104 ATP binding site [chemical binding]; other site 400667006105 Q-loop/lid; other site 400667006106 ABC transporter signature motif; other site 400667006107 Walker B; other site 400667006108 D-loop; other site 400667006109 H-loop/switch region; other site 400667006110 inner membrane transport permease; Provisional; Region: PRK15066 400667006111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 400667006112 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 400667006113 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 400667006114 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 400667006115 Transglycosylase SLT domain; Region: SLT_2; pfam13406 400667006116 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 400667006117 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667006118 catalytic residue [active] 400667006119 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 400667006120 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 400667006121 Protein of unknown function (DUF962); Region: DUF962; cl01879 400667006122 AzlC protein; Region: AzlC; cl00570 400667006123 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400667006124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667006125 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667006126 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 400667006127 elongation factor Ts; Provisional; Region: tsf; PRK09377 400667006128 UBA/TS-N domain; Region: UBA; pfam00627 400667006129 Elongation factor TS; Region: EF_TS; pfam00889 400667006130 Elongation factor TS; Region: EF_TS; pfam00889 400667006131 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 400667006132 S8 interaction site; other site 400667006133 putative laminin-1 binding site; other site 400667006134 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 400667006135 active site 400667006136 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 400667006137 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 400667006138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667006139 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667006140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667006141 putative substrate translocation pore; other site 400667006142 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 400667006143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667006144 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400667006145 lipoyl synthase; Provisional; Region: PRK05481 400667006146 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 400667006147 FeS/SAM binding site; other site 400667006148 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 400667006149 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667006150 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 400667006151 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 400667006152 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 400667006153 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 400667006154 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 400667006155 ligand binding site [chemical binding]; other site 400667006156 catalytic site [active] 400667006157 NAD binding site [chemical binding]; other site 400667006158 homotetramer interface [polypeptide binding]; other site 400667006159 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 400667006160 FAD binding site [chemical binding]; other site 400667006161 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 400667006162 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 400667006163 PAS fold; Region: PAS_3; pfam08447 400667006164 heme pocket [chemical binding]; other site 400667006165 putative active site [active] 400667006166 PAS domain S-box; Region: sensory_box; TIGR00229 400667006167 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 400667006168 putative active site [active] 400667006169 heme pocket [chemical binding]; other site 400667006170 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667006171 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667006172 metal binding site [ion binding]; metal-binding site 400667006173 active site 400667006174 I-site; other site 400667006175 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 400667006176 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 400667006177 Malic enzyme, N-terminal domain; Region: malic; pfam00390 400667006178 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 400667006179 putative NAD(P) binding site [chemical binding]; other site 400667006180 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 400667006181 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 400667006182 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 400667006183 active site 400667006184 NTP binding site [chemical binding]; other site 400667006185 metal binding triad [ion binding]; metal-binding site 400667006186 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 400667006187 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400667006188 Zn2+ binding site [ion binding]; other site 400667006189 Mg2+ binding site [ion binding]; other site 400667006190 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 400667006191 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 400667006192 protein binding site [polypeptide binding]; other site 400667006193 Uncharacterized conserved protein [Function unknown]; Region: COG0327 400667006194 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 400667006195 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 400667006196 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 400667006197 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 400667006198 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 400667006199 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 400667006200 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 400667006201 UbiA prenyltransferase family; Region: UbiA; pfam01040 400667006202 Chorismate lyase; Region: Chor_lyase; cl01230 400667006203 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 400667006204 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 400667006205 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 400667006206 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 400667006207 POT family; Region: PTR2; cl17359 400667006208 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 400667006209 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 400667006210 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 400667006211 active site 400667006212 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 400667006213 glutamine binding [chemical binding]; other site 400667006214 catalytic triad [active] 400667006215 Peptidase family M1; Region: Peptidase_M1; pfam01433 400667006216 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 400667006217 Zn binding site [ion binding]; other site 400667006218 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 400667006219 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 400667006220 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 400667006221 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 400667006222 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 400667006223 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 400667006224 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 400667006225 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 400667006226 active site 400667006227 ribulose/triose binding site [chemical binding]; other site 400667006228 phosphate binding site [ion binding]; other site 400667006229 substrate (anthranilate) binding pocket [chemical binding]; other site 400667006230 product (indole) binding pocket [chemical binding]; other site 400667006231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 400667006232 Smr domain; Region: Smr; pfam01713 400667006233 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 400667006234 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 400667006235 XdhC Rossmann domain; Region: XdhC_C; pfam13478 400667006236 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 400667006237 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 400667006238 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 400667006239 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 400667006240 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 400667006241 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 400667006242 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 400667006243 active site 400667006244 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 400667006245 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 400667006246 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 400667006247 Protein of unknown function (DUF817); Region: DUF817; pfam05675 400667006248 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 400667006249 substrate binding site [chemical binding]; other site 400667006250 active site 400667006251 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 400667006252 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 400667006253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 400667006254 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 400667006255 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 400667006256 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400667006257 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 400667006258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667006259 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 400667006260 Walker A/P-loop; other site 400667006261 ATP binding site [chemical binding]; other site 400667006262 Q-loop/lid; other site 400667006263 ABC transporter signature motif; other site 400667006264 Walker B; other site 400667006265 D-loop; other site 400667006266 H-loop/switch region; other site 400667006267 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 400667006268 ABC transporter signature motif; other site 400667006269 Walker B; other site 400667006270 D-loop; other site 400667006271 H-loop/switch region; other site 400667006272 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400667006273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 400667006274 Walker A/P-loop; other site 400667006275 ATP binding site [chemical binding]; other site 400667006276 Q-loop/lid; other site 400667006277 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 400667006278 histidine decarboxylase; Provisional; Region: PRK02769 400667006279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667006280 catalytic residue [active] 400667006281 Isochorismatase family; Region: Isochorismatase; pfam00857 400667006282 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 400667006283 catalytic triad [active] 400667006284 conserved cis-peptide bond; other site 400667006285 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 400667006286 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 400667006287 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 400667006288 acyl-activating enzyme (AAE) consensus motif; other site 400667006289 active site 400667006290 AMP binding site [chemical binding]; other site 400667006291 substrate binding site [chemical binding]; other site 400667006292 Condensation domain; Region: Condensation; pfam00668 400667006293 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667006294 Condensation domain; Region: Condensation; pfam00668 400667006295 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667006296 Nonribosomal peptide synthase; Region: NRPS; pfam08415 400667006297 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 400667006298 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667006299 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667006300 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 400667006301 N-terminal plug; other site 400667006302 ligand-binding site [chemical binding]; other site 400667006303 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 400667006304 putative ligand binding residues [chemical binding]; other site 400667006305 ABC transporter; Region: ABC_tran; pfam00005 400667006306 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400667006307 Q-loop/lid; other site 400667006308 ABC transporter signature motif; other site 400667006309 Walker B; other site 400667006310 D-loop; other site 400667006311 H-loop/switch region; other site 400667006312 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 400667006313 dimer interface [polypeptide binding]; other site 400667006314 putative PBP binding regions; other site 400667006315 ABC-ATPase subunit interface; other site 400667006316 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 400667006317 ABC-ATPase subunit interface; other site 400667006318 dimer interface [polypeptide binding]; other site 400667006319 putative PBP binding regions; other site 400667006320 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400667006321 Condensation domain; Region: Condensation; pfam00668 400667006322 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667006323 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 400667006324 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 400667006325 acyl-activating enzyme (AAE) consensus motif; other site 400667006326 AMP binding site [chemical binding]; other site 400667006327 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 400667006328 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 400667006329 FAD binding pocket [chemical binding]; other site 400667006330 FAD binding motif [chemical binding]; other site 400667006331 phosphate binding motif [ion binding]; other site 400667006332 NAD binding pocket [chemical binding]; other site 400667006333 YheO-like PAS domain; Region: PAS_6; pfam08348 400667006334 HTH domain; Region: HTH_22; pfam13309 400667006335 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 400667006336 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 400667006337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006338 tetramer interface [polypeptide binding]; other site 400667006339 Pirin-related protein [General function prediction only]; Region: COG1741 400667006340 Pirin; Region: Pirin; pfam02678 400667006341 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667006342 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667006343 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 400667006344 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667006345 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667006346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667006347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667006348 NAD(P) binding site [chemical binding]; other site 400667006349 active site 400667006350 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667006351 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400667006352 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667006353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 400667006354 Trypsin; Region: Trypsin; pfam00089 400667006355 active site 400667006356 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 400667006357 putative effector binding pocket; other site 400667006358 putative dimerization interface [polypeptide binding]; other site 400667006359 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 400667006360 Isochorismatase family; Region: Isochorismatase; pfam00857 400667006361 catalytic triad [active] 400667006362 dimer interface [polypeptide binding]; other site 400667006363 conserved cis-peptide bond; other site 400667006364 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667006365 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667006366 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 400667006367 Fatty acid desaturase; Region: FA_desaturase; pfam00487 400667006368 putative di-iron ligands [ion binding]; other site 400667006369 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 400667006370 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 400667006371 putative di-iron ligands [ion binding]; other site 400667006372 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 400667006373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667006374 NAD(P) binding site [chemical binding]; other site 400667006375 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400667006376 active site 400667006377 PaaX-like protein; Region: PaaX; pfam07848 400667006378 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 400667006379 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 400667006380 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 400667006381 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 400667006382 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 400667006383 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 400667006384 active site 400667006385 Protein of unknown function (DUF466); Region: DUF466; pfam04328 400667006386 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 400667006387 Carbon starvation protein CstA; Region: CstA; pfam02554 400667006388 elongation factor P; Validated; Region: PRK00529 400667006389 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 400667006390 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 400667006391 RNA binding site [nucleotide binding]; other site 400667006392 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 400667006393 RNA binding site [nucleotide binding]; other site 400667006394 Radical SAM superfamily; Region: Radical_SAM; pfam04055 400667006395 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 400667006396 FeS/SAM binding site; other site 400667006397 PAS domain S-box; Region: sensory_box; TIGR00229 400667006398 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; cl00290 400667006399 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 400667006400 Sodium Bile acid symporter family; Region: SBF; cl17470 400667006401 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 400667006402 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 400667006403 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 400667006404 dimer interface [polypeptide binding]; other site 400667006405 active site 400667006406 glutathione binding site [chemical binding]; other site 400667006407 muropeptide transporter; Validated; Region: ampG; cl17669 400667006408 muropeptide transporter; Validated; Region: ampG; cl17669 400667006409 muropeptide transporter; Validated; Region: ampG; cl17669 400667006410 AAA domain; Region: AAA_32; pfam13654 400667006411 AAA domain; Region: AAA_32; pfam13654 400667006412 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 400667006413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667006414 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 400667006415 putative effector binding pocket; other site 400667006416 dimerization interface [polypeptide binding]; other site 400667006417 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400667006418 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667006419 Peptidase family M23; Region: Peptidase_M23; pfam01551 400667006420 Survival protein SurE; Region: SurE; cl00448 400667006421 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 400667006422 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 400667006423 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 400667006424 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 400667006425 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 400667006426 trimer interface [polypeptide binding]; other site 400667006427 putative metal binding site [ion binding]; other site 400667006428 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 400667006429 nudix motif; other site 400667006430 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 400667006431 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 400667006432 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 400667006433 putative lysogenization regulator; Reviewed; Region: PRK00218 400667006434 adenylosuccinate lyase; Provisional; Region: PRK09285 400667006435 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 400667006436 active site 400667006437 tetramer interface [polypeptide binding]; other site 400667006438 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 400667006439 putative inner membrane peptidase; Provisional; Region: PRK11778 400667006440 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 400667006441 tandem repeat interface [polypeptide binding]; other site 400667006442 oligomer interface [polypeptide binding]; other site 400667006443 active site residues [active] 400667006444 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 400667006445 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 400667006446 Walker A/P-loop; other site 400667006447 ATP binding site [chemical binding]; other site 400667006448 Q-loop/lid; other site 400667006449 ABC transporter signature motif; other site 400667006450 Walker B; other site 400667006451 D-loop; other site 400667006452 H-loop/switch region; other site 400667006453 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 400667006454 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 400667006455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667006456 dimer interface [polypeptide binding]; other site 400667006457 conserved gate region; other site 400667006458 putative PBP binding loops; other site 400667006459 ABC-ATPase subunit interface; other site 400667006460 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 400667006461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667006462 dimer interface [polypeptide binding]; other site 400667006463 conserved gate region; other site 400667006464 putative PBP binding loops; other site 400667006465 ABC-ATPase subunit interface; other site 400667006466 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 400667006467 aromatic amino acid transporter; Provisional; Region: PRK10238 400667006468 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 400667006469 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 400667006470 dimer interface [polypeptide binding]; other site 400667006471 TPP binding site [chemical binding]; other site 400667006472 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 400667006473 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 400667006474 TPP-binding site [chemical binding]; other site 400667006475 dimer interface [polypeptide binding]; other site 400667006476 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400667006477 AsnC family; Region: AsnC_trans_reg; pfam01037 400667006478 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 400667006479 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400667006480 NAD(P) binding site [chemical binding]; other site 400667006481 catalytic residues [active] 400667006482 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 400667006483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006484 catalytic residue [active] 400667006485 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 400667006486 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 400667006487 inhibitor-cofactor binding pocket; inhibition site 400667006488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006489 catalytic residue [active] 400667006490 Protein of unknown function (DUF541); Region: SIMPL; cl01077 400667006491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667006492 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 400667006493 dimerization interface [polypeptide binding]; other site 400667006494 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 400667006495 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 400667006496 Fatty acid desaturase; Region: FA_desaturase; pfam00487 400667006497 putative di-iron ligands [ion binding]; other site 400667006498 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_2; cd06216 400667006499 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400667006500 FAD binding pocket [chemical binding]; other site 400667006501 FAD binding motif [chemical binding]; other site 400667006502 phosphate binding motif [ion binding]; other site 400667006503 beta-alpha-beta structure motif; other site 400667006504 NAD binding pocket [chemical binding]; other site 400667006505 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 400667006506 catalytic loop [active] 400667006507 iron binding site [ion binding]; other site 400667006508 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 400667006509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667006510 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 400667006511 ATP-dependent helicase HepA; Validated; Region: PRK04914 400667006512 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 400667006513 ATP binding site [chemical binding]; other site 400667006514 putative Mg++ binding site [ion binding]; other site 400667006515 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 400667006516 nucleotide binding region [chemical binding]; other site 400667006517 ATP-binding site [chemical binding]; other site 400667006518 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 400667006519 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400667006520 active site 400667006521 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 400667006522 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 400667006523 inhibitor-cofactor binding pocket; inhibition site 400667006524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006525 catalytic residue [active] 400667006526 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 400667006527 thiamine phosphate binding site [chemical binding]; other site 400667006528 active site 400667006529 pyrophosphate binding site [ion binding]; other site 400667006530 Protein of unknown function (DUF962); Region: DUF962; pfam06127 400667006531 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 400667006532 putative active site [active] 400667006533 putative triphosphate binding site [ion binding]; other site 400667006534 putative metal binding residues [ion binding]; other site 400667006535 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 400667006536 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 400667006537 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 400667006538 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 400667006539 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400667006540 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 400667006541 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400667006542 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 400667006543 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667006544 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 400667006545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667006546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667006547 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 400667006548 putative dimerization interface [polypeptide binding]; other site 400667006549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667006550 putative substrate translocation pore; other site 400667006551 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 400667006552 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 400667006553 pseudouridine synthase; Region: TIGR00093 400667006554 active site 400667006555 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 400667006556 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 400667006557 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 400667006558 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 400667006559 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 400667006560 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 400667006561 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 400667006562 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 400667006563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667006564 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 400667006565 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400667006566 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 400667006567 DNA photolyase; Region: DNA_photolyase; pfam00875 400667006568 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 400667006569 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 400667006570 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 400667006571 DXD motif; other site 400667006572 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 400667006573 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400667006574 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 400667006575 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 400667006576 active site 400667006577 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 400667006578 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 400667006579 TPR motif; other site 400667006580 binding surface 400667006581 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 400667006582 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 400667006583 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 400667006584 FMN binding site [chemical binding]; other site 400667006585 substrate binding site [chemical binding]; other site 400667006586 putative catalytic residue [active] 400667006587 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 400667006588 FMN binding site [chemical binding]; other site 400667006589 active site 400667006590 catalytic residues [active] 400667006591 substrate binding site [chemical binding]; other site 400667006592 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 400667006593 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400667006594 gamma-glutamyl kinase; Provisional; Region: PRK05429 400667006595 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 400667006596 nucleotide binding site [chemical binding]; other site 400667006597 homotetrameric interface [polypeptide binding]; other site 400667006598 putative phosphate binding site [ion binding]; other site 400667006599 putative allosteric binding site; other site 400667006600 PUA domain; Region: PUA; pfam01472 400667006601 GTP1/OBG; Region: GTP1_OBG; pfam01018 400667006602 Obg GTPase; Region: Obg; cd01898 400667006603 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 400667006604 G1 box; other site 400667006605 GTP/Mg2+ binding site [chemical binding]; other site 400667006606 Switch I region; other site 400667006607 G2 box; other site 400667006608 G3 box; other site 400667006609 Switch II region; other site 400667006610 G4 box; other site 400667006611 G5 box; other site 400667006612 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 400667006613 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 400667006614 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 400667006615 Predicted permeases [General function prediction only]; Region: RarD; COG2962 400667006616 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 400667006617 excinuclease ABC subunit B; Provisional; Region: PRK05298 400667006618 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 400667006619 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 400667006620 nucleotide binding region [chemical binding]; other site 400667006621 ATP-binding site [chemical binding]; other site 400667006622 Ultra-violet resistance protein B; Region: UvrB; pfam12344 400667006623 UvrB/uvrC motif; Region: UVR; pfam02151 400667006624 hypothetical protein; Region: PHA00684 400667006625 PAS domain; Region: PAS_9; pfam13426 400667006626 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667006627 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667006628 metal binding site [ion binding]; metal-binding site 400667006629 active site 400667006630 I-site; other site 400667006631 aspartate aminotransferase; Provisional; Region: PRK05764 400667006632 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 400667006633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006634 homodimer interface [polypeptide binding]; other site 400667006635 catalytic residue [active] 400667006636 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 400667006637 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 400667006638 nucleotide binding site [chemical binding]; other site 400667006639 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 400667006640 CoenzymeA binding site [chemical binding]; other site 400667006641 subunit interaction site [polypeptide binding]; other site 400667006642 PHB binding site; other site 400667006643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667006644 NAD(P) binding site [chemical binding]; other site 400667006645 active site 400667006646 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 400667006647 active site 400667006648 dinuclear metal binding site [ion binding]; other site 400667006649 dimerization interface [polypeptide binding]; other site 400667006650 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 400667006651 hydrophilic channel; other site 400667006652 active site 400667006653 catalytic residues [active] 400667006654 active site lid [active] 400667006655 dimerization interface [polypeptide binding]; other site 400667006656 Recombination protein O C terminal; Region: RecO_C; pfam02565 400667006657 GTPase Era; Reviewed; Region: era; PRK00089 400667006658 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 400667006659 Switch I region; other site 400667006660 GTP/Mg2+ binding site [chemical binding]; other site 400667006661 G2 box; other site 400667006662 Switch II region; other site 400667006663 G3 box; other site 400667006664 G4 box; other site 400667006665 G5 box; other site 400667006666 KH domain; Region: KH_2; pfam07650 400667006667 ribonuclease III; Reviewed; Region: rnc; PRK00102 400667006668 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 400667006669 dimerization interface [polypeptide binding]; other site 400667006670 metal binding site [ion binding]; metal-binding site 400667006671 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 400667006672 dsRNA binding site [nucleotide binding]; other site 400667006673 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 400667006674 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 400667006675 Catalytic site [active] 400667006676 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 400667006677 GTP-binding protein LepA; Provisional; Region: PRK05433 400667006678 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 400667006679 Switch I region; other site 400667006680 G2 box; other site 400667006681 putative GEF interaction site [polypeptide binding]; other site 400667006682 G3 box; other site 400667006683 Switch II region; other site 400667006684 GTP/Mg2+ binding site [chemical binding]; other site 400667006685 G4 box; other site 400667006686 G5 box; other site 400667006687 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 400667006688 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 400667006689 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 400667006690 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400667006691 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 400667006692 active site 400667006693 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 400667006694 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 400667006695 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 400667006696 protein binding site [polypeptide binding]; other site 400667006697 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 400667006698 protein binding site [polypeptide binding]; other site 400667006699 L-aspartate oxidase; Provisional; Region: PRK09077 400667006700 L-aspartate oxidase; Provisional; Region: PRK06175 400667006701 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 400667006702 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 400667006703 CoenzymeA binding site [chemical binding]; other site 400667006704 subunit interaction site [polypeptide binding]; other site 400667006705 PHB binding site; other site 400667006706 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 400667006707 thymidylate kinase; Validated; Region: tmk; PRK00698 400667006708 TMP-binding site; other site 400667006709 ATP-binding site [chemical binding]; other site 400667006710 YceG-like family; Region: YceG; pfam02618 400667006711 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 400667006712 dimerization interface [polypeptide binding]; other site 400667006713 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 400667006714 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 400667006715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006716 catalytic residue [active] 400667006717 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400667006718 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400667006719 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400667006720 Serine hydrolase; Region: Ser_hydrolase; pfam06821 400667006721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667006722 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400667006723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667006724 dimer interface [polypeptide binding]; other site 400667006725 conserved gate region; other site 400667006726 putative PBP binding loops; other site 400667006727 ABC-ATPase subunit interface; other site 400667006728 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 400667006729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 400667006730 dimer interface [polypeptide binding]; other site 400667006731 conserved gate region; other site 400667006732 putative PBP binding loops; other site 400667006733 ABC-ATPase subunit interface; other site 400667006734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667006735 ABC transporter signature motif; other site 400667006736 Walker B; other site 400667006737 D-loop; other site 400667006738 H-loop/switch region; other site 400667006739 TOBE-like domain; Region: TOBE_3; pfam12857 400667006740 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 400667006741 substrate binding site [chemical binding]; other site 400667006742 dimerization interface [polypeptide binding]; other site 400667006743 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 400667006744 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 400667006745 active site 400667006746 substrate binding site [chemical binding]; other site 400667006747 trimer interface [polypeptide binding]; other site 400667006748 CoA binding site [chemical binding]; other site 400667006749 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 400667006750 FeS/SAM binding site; other site 400667006751 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 400667006752 Predicted PP-loop superfamily ATPase [General function prediction only]; Region: COG0603 400667006753 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 400667006754 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 400667006755 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 400667006756 catalytic triad [active] 400667006757 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 400667006758 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 400667006759 nicotinamide-nucleotide adenylyltransferase; Provisional; Region: PRK13793 400667006760 active site 400667006761 nucleotide binding site [chemical binding]; other site 400667006762 HIGH motif; other site 400667006763 KMSKS motif; other site 400667006764 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 400667006765 substrate binding site [chemical binding]; other site 400667006766 trimer interface [polypeptide binding]; other site 400667006767 oxyanion hole (OAH) forming residues; other site 400667006768 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 400667006769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 400667006770 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 400667006771 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 400667006772 Integrase core domain; Region: rve; pfam00665 400667006773 AAA domain; Region: AAA_22; pfam13401 400667006774 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 400667006775 Walker A motif; other site 400667006776 ATP binding site [chemical binding]; other site 400667006777 Walker B motif; other site 400667006778 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 400667006779 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 400667006780 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 400667006781 HTH-like domain; Region: HTH_21; pfam13276 400667006782 Cupin superfamily protein; Region: Cupin_4; pfam08007 400667006783 Cupin-like domain; Region: Cupin_8; pfam13621 400667006784 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 400667006785 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667006786 B-Box C-terminal domain; Region: BBC; smart00502 400667006787 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667006788 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 400667006789 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_C39C; cd02419 400667006790 putative active site [active] 400667006791 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400667006792 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667006793 Walker A/P-loop; other site 400667006794 ATP binding site [chemical binding]; other site 400667006795 Q-loop/lid; other site 400667006796 ABC transporter signature motif; other site 400667006797 Walker B; other site 400667006798 D-loop; other site 400667006799 H-loop/switch region; other site 400667006800 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 400667006801 putative efflux protein, MATE family; Region: matE; TIGR00797 400667006802 cation binding site [ion binding]; other site 400667006803 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 400667006804 FAD binding pocket [chemical binding]; other site 400667006805 FAD binding motif [chemical binding]; other site 400667006806 phosphate binding motif [ion binding]; other site 400667006807 NAD binding pocket [chemical binding]; other site 400667006808 muropeptide transporter; Validated; Region: ampG; cl17669 400667006809 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 400667006810 ligand-binding site [chemical binding]; other site 400667006811 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 400667006812 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 400667006813 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400667006814 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 400667006815 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 400667006816 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 400667006817 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 400667006818 active site 400667006819 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667006820 dimer interface [polypeptide binding]; other site 400667006821 substrate binding site [chemical binding]; other site 400667006822 catalytic residues [active] 400667006823 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 400667006824 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667006825 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667006826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667006827 AMP-binding enzyme; Region: AMP-binding; pfam00501 400667006828 acyl-activating enzyme (AAE) consensus motif; other site 400667006829 active site 400667006830 AMP binding site [chemical binding]; other site 400667006831 CoA binding site [chemical binding]; other site 400667006832 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400667006833 Condensation domain; Region: Condensation; pfam00668 400667006834 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667006835 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667006836 active site 400667006837 CoA binding site [chemical binding]; other site 400667006838 AMP binding site [chemical binding]; other site 400667006839 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400667006840 Condensation domain; Region: Condensation; pfam00668 400667006841 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667006842 Nonribosomal peptide synthase; Region: NRPS; pfam08415 400667006843 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667006844 acyl-activating enzyme (AAE) consensus motif; other site 400667006845 Condensation domain; Region: Condensation; pfam00668 400667006846 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400667006847 Nonribosomal peptide synthase; Region: NRPS; pfam08415 400667006848 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400667006849 CoA binding site [chemical binding]; other site 400667006850 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400667006851 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 400667006852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667006853 NAD(P) binding site [chemical binding]; other site 400667006854 active site 400667006855 Isochorismatase family; Region: Isochorismatase; pfam00857 400667006856 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 400667006857 catalytic triad [active] 400667006858 conserved cis-peptide bond; other site 400667006859 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 400667006860 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667006861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667006862 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 400667006863 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667006864 putative substrate translocation pore; other site 400667006865 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 400667006866 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 400667006867 dimerization interface [polypeptide binding]; other site 400667006868 ATP binding site [chemical binding]; other site 400667006869 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 400667006870 dimerization interface [polypeptide binding]; other site 400667006871 ATP binding site [chemical binding]; other site 400667006872 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 400667006873 putative active site [active] 400667006874 catalytic triad [active] 400667006875 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 400667006876 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 400667006877 RuvA N terminal domain; Region: RuvA_N; pfam01330 400667006878 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 400667006879 Holliday junction DNA helicase, RuvB subunit; Region: ruvB; TIGR00635 400667006880 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 400667006881 Walker A motif; other site 400667006882 ATP binding site [chemical binding]; other site 400667006883 Walker B motif; other site 400667006884 arginine finger; other site 400667006885 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 400667006886 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 400667006887 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 400667006888 metal binding site [ion binding]; metal-binding site 400667006889 putative dimer interface [polypeptide binding]; other site 400667006890 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 400667006891 active site 400667006892 TolQ protein; Region: tolQ; TIGR02796 400667006893 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400667006894 TolR protein; Region: tolR; TIGR02801 400667006895 TolA protein; Region: tolA_full; TIGR02794 400667006896 TonB C terminal; Region: TonB_2; pfam13103 400667006897 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 400667006898 TolB amino-terminal domain; Region: TolB_N; pfam04052 400667006899 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 400667006900 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 400667006901 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667006902 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667006903 ligand binding site [chemical binding]; other site 400667006904 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 400667006905 metal binding site [ion binding]; metal-binding site 400667006906 active site 400667006907 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 400667006908 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 400667006909 RNA polymerase factor sigma-70; Validated; Region: PRK09047 400667006910 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400667006911 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 400667006912 DNA binding residues [nucleotide binding] 400667006913 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 400667006914 CSLREA domain; Region: CSLREA_Nterm; TIGR04214 400667006915 Acinetobacter rhombotarget A; Region: GlyGly_RbtA; TIGR04212 400667006916 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 400667006917 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 400667006918 Walker A motif; other site 400667006919 ATP binding site [chemical binding]; other site 400667006920 Walker B motif; other site 400667006921 arginine finger; other site 400667006922 Domain of unknown function DUF20; Region: UPF0118; pfam01594 400667006923 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 400667006924 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 400667006925 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 400667006926 dimerization interface [polypeptide binding]; other site 400667006927 putative ATP binding site [chemical binding]; other site 400667006928 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 400667006929 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 400667006930 active site 400667006931 cosubstrate binding site; other site 400667006932 substrate binding site [chemical binding]; other site 400667006933 catalytic site [active] 400667006934 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 400667006935 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 400667006936 tandem repeat interface [polypeptide binding]; other site 400667006937 oligomer interface [polypeptide binding]; other site 400667006938 active site residues [active] 400667006939 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 400667006940 putative acyl-acceptor binding pocket; other site 400667006941 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 400667006942 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 400667006943 Competence protein; Region: Competence; pfam03772 400667006944 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 400667006945 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 400667006946 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 400667006947 Walker A/P-loop; other site 400667006948 ATP binding site [chemical binding]; other site 400667006949 ABC transporter; Region: ABC_tran; pfam00005 400667006950 Q-loop/lid; other site 400667006951 ABC transporter signature motif; other site 400667006952 Walker B; other site 400667006953 D-loop; other site 400667006954 H-loop/switch region; other site 400667006955 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 400667006956 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 400667006957 EamA-like transporter family; Region: EamA; pfam00892 400667006958 EamA-like transporter family; Region: EamA; cl17759 400667006959 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 400667006960 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 400667006961 homodimer interface [polypeptide binding]; other site 400667006962 substrate-cofactor binding pocket; other site 400667006963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667006964 catalytic residue [active] 400667006965 Outer membrane efflux protein; Region: OEP; pfam02321 400667006966 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 400667006967 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667006968 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667006969 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 400667006970 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 400667006971 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 400667006972 putative homodimer interface [polypeptide binding]; other site 400667006973 putative active site [active] 400667006974 YdjC motif; other site 400667006975 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 400667006976 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 400667006977 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 400667006978 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 400667006979 DNA gyrase subunit A; Validated; Region: PRK05560 400667006980 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 400667006981 CAP-like domain; other site 400667006982 active site 400667006983 primary dimer interface [polypeptide binding]; other site 400667006984 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400667006985 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400667006986 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400667006987 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400667006988 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400667006989 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400667006990 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 400667006991 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 400667006992 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 400667006993 Electron transfer flavoprotein domain; Region: ETF; pfam01012 400667006994 Ligand binding site [chemical binding]; other site 400667006995 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 400667006996 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 400667006997 active site 400667006998 DNA binding site [nucleotide binding] 400667006999 Int/Topo IB signature motif; other site 400667007000 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667007001 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 400667007002 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 400667007003 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 400667007004 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 400667007005 diaminopimelate decarboxylase; Region: lysA; TIGR01048 400667007006 active site 400667007007 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400667007008 substrate binding site [chemical binding]; other site 400667007009 catalytic residues [active] 400667007010 dimer interface [polypeptide binding]; other site 400667007011 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 400667007012 DNA repair protein RadA; Provisional; Region: PRK11823 400667007013 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 400667007014 Walker A motif/ATP binding site; other site 400667007015 ATP binding site [chemical binding]; other site 400667007016 Walker B motif; other site 400667007017 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 400667007018 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 400667007019 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 400667007020 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 400667007021 dimer interface [polypeptide binding]; other site 400667007022 motif 1; other site 400667007023 active site 400667007024 motif 2; other site 400667007025 motif 3; other site 400667007026 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 400667007027 ligand binding site [chemical binding]; other site 400667007028 NAD binding site [chemical binding]; other site 400667007029 catalytic site [active] 400667007030 homodimer interface [polypeptide binding]; other site 400667007031 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 400667007032 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 400667007033 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 400667007034 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 400667007035 putative molybdopterin cofactor binding site [chemical binding]; other site 400667007036 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 400667007037 putative molybdopterin cofactor binding site; other site 400667007038 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 400667007039 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667007040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667007041 NAD(P) binding site [chemical binding]; other site 400667007042 active site 400667007043 Nitroreductase-like family 1. 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_1; cd02137 400667007044 dimer interface [polypeptide binding]; other site 400667007045 FMN binding site [chemical binding]; other site 400667007046 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667007047 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667007048 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667007049 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667007050 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667007051 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 400667007052 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667007053 Coenzyme A binding pocket [chemical binding]; other site 400667007054 The adenylation (A) domain of siderophore-synthesizing nonribosomal peptide synthetases (NRPS); Region: A_NRPS_SidN3_like; cd05918 400667007055 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 400667007056 acyl-activating enzyme (AAE) consensus motif; other site 400667007057 AMP binding site [chemical binding]; other site 400667007058 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400667007059 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 400667007060 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400667007061 putative trimer interface [polypeptide binding]; other site 400667007062 putative CoA binding site [chemical binding]; other site 400667007063 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400667007064 putative CoA binding site [chemical binding]; other site 400667007065 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400667007066 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 400667007067 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 400667007068 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400667007069 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 400667007070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667007071 catalytic residue [active] 400667007072 SCP-2 sterol transfer family; Region: SCP2; pfam02036 400667007073 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 400667007074 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 400667007075 Ligand Binding Site [chemical binding]; other site 400667007076 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 400667007077 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 400667007078 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667007079 catalytic residue [active] 400667007080 heat shock protein HtpX; Provisional; Region: PRK05457 400667007081 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 400667007082 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 400667007083 Protein export membrane protein; Region: SecD_SecF; cl14618 400667007084 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 400667007085 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 400667007086 putative active site [active] 400667007087 catalytic site [active] 400667007088 putative metal binding site [ion binding]; other site 400667007089 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 400667007090 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 400667007091 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 400667007092 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 400667007093 ring oligomerisation interface [polypeptide binding]; other site 400667007094 ATP/Mg binding site [chemical binding]; other site 400667007095 stacking interactions; other site 400667007096 hinge regions; other site 400667007097 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 400667007098 oligomerisation interface [polypeptide binding]; other site 400667007099 mobile loop; other site 400667007100 roof hairpin; other site 400667007101 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 400667007102 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400667007103 active site 400667007104 metal binding site [ion binding]; metal-binding site 400667007105 putative lipid kinase; Reviewed; Region: PRK13057 400667007106 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 400667007107 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_GTP; cd00819 400667007108 active site 400667007109 substrate-binding site [chemical binding]; other site 400667007110 metal-binding site [ion binding] 400667007111 GTP binding site [chemical binding]; other site 400667007112 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 400667007113 glycerol kinase; Region: glycerol_kin; TIGR01311 400667007114 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 400667007115 homotetramer interface [polypeptide binding]; other site 400667007116 N- and C-terminal domain interface [polypeptide binding]; other site 400667007117 active site 400667007118 glycerol binding site [chemical binding]; other site 400667007119 homodimer interface [polypeptide binding]; other site 400667007120 FBP binding site [chemical binding]; other site 400667007121 MgATP binding site [chemical binding]; other site 400667007122 protein IIAGlc interface [polypeptide binding]; other site 400667007123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667007124 putative substrate translocation pore; other site 400667007125 Predicted methyltransferase [General function prediction only]; Region: COG3897 400667007126 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 400667007127 S-adenosylmethionine binding site [chemical binding]; other site 400667007128 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 400667007129 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 400667007130 homodimer interface [polypeptide binding]; other site 400667007131 NADP binding site [chemical binding]; other site 400667007132 substrate binding site [chemical binding]; other site 400667007133 PhoD-like phosphatase; Region: PhoD; pfam09423 400667007134 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 400667007135 putative active site [active] 400667007136 putative metal binding site [ion binding]; other site 400667007137 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 400667007138 dihydropteroate synthase; Region: DHPS; TIGR01496 400667007139 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 400667007140 substrate binding pocket [chemical binding]; other site 400667007141 dimer interface [polypeptide binding]; other site 400667007142 inhibitor binding site; inhibition site 400667007143 FtsH Extracellular; Region: FtsH_ext; pfam06480 400667007144 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 400667007145 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 400667007146 Walker A motif; other site 400667007147 ATP binding site [chemical binding]; other site 400667007148 Walker B motif; other site 400667007149 arginine finger; other site 400667007150 Peptidase family M41; Region: Peptidase_M41; pfam01434 400667007151 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 400667007152 FtsJ-like methyltransferase; Region: FtsJ; cl17430 400667007153 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 400667007154 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 400667007155 putative heme binding site [chemical binding]; other site 400667007156 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 400667007157 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 400667007158 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 400667007159 catalytic site [active] 400667007160 subunit interface [polypeptide binding]; other site 400667007161 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 400667007162 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667007163 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 400667007164 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 400667007165 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667007166 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400667007167 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 400667007168 IMP binding site; other site 400667007169 dimer interface [polypeptide binding]; other site 400667007170 interdomain contacts; other site 400667007171 partial ornithine binding site; other site 400667007172 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 400667007173 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 400667007174 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400667007175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667007176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667007177 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 400667007178 homotrimer interaction site [polypeptide binding]; other site 400667007179 putative active site [active] 400667007180 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 400667007181 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 400667007182 trimer interface [polypeptide binding]; other site 400667007183 active site 400667007184 substrate binding site [chemical binding]; other site 400667007185 CoA binding site [chemical binding]; other site 400667007186 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 400667007187 Ligand Binding Site [chemical binding]; other site 400667007188 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 400667007189 DNA binding site [nucleotide binding] 400667007190 active site 400667007191 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 400667007192 putative active site [active] 400667007193 putative metal binding site [ion binding]; other site 400667007194 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 400667007195 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 400667007196 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400667007197 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400667007198 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400667007199 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 400667007200 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 400667007201 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 400667007202 active site 400667007203 SAM binding site [chemical binding]; other site 400667007204 homodimer interface [polypeptide binding]; other site 400667007205 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 400667007206 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667007207 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667007208 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 400667007209 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 400667007210 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400667007211 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 400667007212 active site 400667007213 NAD binding site [chemical binding]; other site 400667007214 metal binding site [ion binding]; metal-binding site 400667007215 lipoate-protein ligase B; Provisional; Region: PRK14342 400667007216 Protein of unknown function (DUF493); Region: DUF493; pfam04359 400667007217 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 400667007218 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 400667007219 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 400667007220 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400667007221 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 400667007222 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 400667007223 DNA binding residues [nucleotide binding] 400667007224 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 400667007225 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 400667007226 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 400667007227 active site residue [active] 400667007228 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 400667007229 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 400667007230 dimer interface [polypeptide binding]; other site 400667007231 active site 400667007232 citrylCoA binding site [chemical binding]; other site 400667007233 NADH binding [chemical binding]; other site 400667007234 cationic pore residues; other site 400667007235 oxalacetate/citrate binding site [chemical binding]; other site 400667007236 coenzyme A binding site [chemical binding]; other site 400667007237 catalytic triad [active] 400667007238 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 400667007239 Iron-sulfur protein interface; other site 400667007240 proximal quinone binding site [chemical binding]; other site 400667007241 SdhD (CybS) interface [polypeptide binding]; other site 400667007242 proximal heme binding site [chemical binding]; other site 400667007243 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 400667007244 proximal heme binding site [chemical binding]; other site 400667007245 cardiolipin binding site; other site 400667007246 SdhC subunit interface [polypeptide binding]; other site 400667007247 Iron-sulfur protein interface; other site 400667007248 proximal quinone binding site [chemical binding]; other site 400667007249 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 400667007250 L-aspartate oxidase; Provisional; Region: PRK06175 400667007251 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 400667007252 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 400667007253 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 400667007254 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 400667007255 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 400667007256 TPP-binding site [chemical binding]; other site 400667007257 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 400667007258 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 400667007259 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 400667007260 E3 interaction surface; other site 400667007261 lipoyl attachment site [posttranslational modification]; other site 400667007262 e3 binding domain; Region: E3_binding; pfam02817 400667007263 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 400667007264 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 400667007265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667007266 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400667007267 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 400667007268 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 400667007269 CoA-ligase; Region: Ligase_CoA; pfam00549 400667007270 CoA binding domain; Region: CoA_binding; smart00881 400667007271 CoA-ligase; Region: Ligase_CoA; pfam00549 400667007272 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 400667007273 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 400667007274 dimer interface [polypeptide binding]; other site 400667007275 active site 400667007276 KMSKS motif; other site 400667007277 Protein of unknown function (DUF808); Region: DUF808; pfam05661 400667007278 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 400667007279 Predicted metalloprotease [General function prediction only]; Region: COG2321 400667007280 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 400667007281 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400667007282 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 400667007283 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 400667007284 seryl-tRNA synthetase; Provisional; Region: PRK05431 400667007285 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 400667007286 dimer interface [polypeptide binding]; other site 400667007287 active site 400667007288 motif 1; other site 400667007289 motif 2; other site 400667007290 motif 3; other site 400667007291 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 400667007292 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 400667007293 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 400667007294 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 400667007295 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 400667007296 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 400667007297 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 400667007298 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 400667007299 substrate binding pocket [chemical binding]; other site 400667007300 chain length determination region; other site 400667007301 substrate-Mg2+ binding site; other site 400667007302 catalytic residues [active] 400667007303 aspartate-rich region 1; other site 400667007304 active site lid residues [active] 400667007305 aspartate-rich region 2; other site 400667007306 Site-specific recombinase; Region: SpecificRecomb; pfam10136 400667007307 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 400667007308 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 400667007309 active site 400667007310 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 400667007311 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667007312 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667007313 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 400667007314 Protein export membrane protein; Region: SecD_SecF; cl14618 400667007315 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 400667007316 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 400667007317 Uncharacterized conserved protein [Function unknown]; Region: COG0393 400667007318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667007319 NAD(P) binding site [chemical binding]; other site 400667007320 active site 400667007321 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 400667007322 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 400667007323 HIGH motif; other site 400667007324 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 400667007325 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 400667007326 active site 400667007327 KMSKS motif; other site 400667007328 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 400667007329 tRNA binding surface [nucleotide binding]; other site 400667007330 anticodon binding site; other site 400667007331 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 400667007332 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 400667007333 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 400667007334 S-adenosylmethionine binding site [chemical binding]; other site 400667007335 Predicted permeases [General function prediction only]; Region: COG0679 400667007336 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667007337 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 400667007338 dimerization interface [polypeptide binding]; other site 400667007339 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 400667007340 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 400667007341 active site 400667007342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400667007343 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 400667007344 dimer interface [polypeptide binding]; other site 400667007345 phosphorylation site [posttranslational modification] 400667007346 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 400667007347 ATP binding site [chemical binding]; other site 400667007348 Mg2+ binding site [ion binding]; other site 400667007349 G-X-G motif; other site 400667007350 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400667007351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667007352 intermolecular recognition site; other site 400667007353 active site 400667007354 dimerization interface [polypeptide binding]; other site 400667007355 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 400667007356 DNA binding site [nucleotide binding] 400667007357 putative metal dependent hydrolase; Provisional; Region: PRK11598 400667007358 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 400667007359 Sulfatase; Region: Sulfatase; pfam00884 400667007360 muropeptide transporter; Validated; Region: ampG; cl17669 400667007361 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 400667007362 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400667007363 putative acyl-acceptor binding pocket; other site 400667007364 hypothetical protein; Provisional; Region: PRK10279 400667007365 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 400667007366 nucleophile elbow; other site 400667007367 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 400667007368 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 400667007369 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 400667007370 Protein of unknown function (DUF419); Region: DUF419; cl15265 400667007371 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 400667007372 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 400667007373 substrate binding pocket [chemical binding]; other site 400667007374 chain length determination region; other site 400667007375 substrate-Mg2+ binding site; other site 400667007376 catalytic residues [active] 400667007377 aspartate-rich region 1; other site 400667007378 active site lid residues [active] 400667007379 aspartate-rich region 2; other site 400667007380 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 400667007381 aromatic amino acid transporter; Provisional; Region: PRK10238 400667007382 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 400667007383 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 400667007384 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 400667007385 conserved cys residue [active] 400667007386 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 400667007387 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 400667007388 NAD(P) binding site [chemical binding]; other site 400667007389 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 400667007390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667007391 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667007392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667007393 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 400667007394 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 400667007395 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 400667007396 putative di-iron ligands [ion binding]; other site 400667007397 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 400667007398 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667007399 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667007400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667007401 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 400667007402 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667007403 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 400667007404 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 400667007405 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 400667007406 motif II; other site 400667007407 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 400667007408 Active Sites [active] 400667007409 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 400667007410 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 400667007411 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 400667007412 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 400667007413 oligonucleotide binding site [chemical binding]; other site 400667007414 homodimer interface [polypeptide binding]; other site 400667007415 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 400667007416 active site 400667007417 dimer interface [polypeptide binding]; other site 400667007418 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 400667007419 rod shape-determining protein MreC; Provisional; Region: PRK13922 400667007420 rod shape-determining protein MreC; Region: MreC; pfam04085 400667007421 rod shape-determining protein MreB; Provisional; Region: PRK13927 400667007422 MreB and similar proteins; Region: MreB_like; cd10225 400667007423 nucleotide binding site [chemical binding]; other site 400667007424 Mg binding site [ion binding]; other site 400667007425 putative protofilament interaction site [polypeptide binding]; other site 400667007426 RodZ interaction site [polypeptide binding]; other site 400667007427 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 400667007428 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 400667007429 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 400667007430 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 400667007431 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 400667007432 GatB domain; Region: GatB_Yqey; smart00845 400667007433 intracellular protease, PfpI family; Region: PfpI; TIGR01382 400667007434 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 400667007435 conserved cys residue [active] 400667007436 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 400667007437 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 400667007438 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 400667007439 active site 400667007440 Zn binding site [ion binding]; other site 400667007441 microcin B17 transporter; Reviewed; Region: PRK11098 400667007442 threonine ammonia-lyase, medium form; Region: ilvA_1Cterm; TIGR01127 400667007443 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 400667007444 tetramer interface [polypeptide binding]; other site 400667007445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667007446 catalytic residue [active] 400667007447 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 400667007448 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 400667007449 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 400667007450 active site 400667007451 nucleophile elbow; other site 400667007452 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 400667007453 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 400667007454 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 400667007455 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 400667007456 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667007457 putative substrate translocation pore; other site 400667007458 TIGR01666 family membrane protein; Region: YCCS 400667007459 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 400667007460 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 400667007461 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 400667007462 YcxB-like protein; Region: YcxB; pfam14317 400667007463 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 400667007464 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 400667007465 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 400667007466 Flavodoxin; Region: Flavodoxin_1; pfam00258 400667007467 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 400667007468 FAD binding pocket [chemical binding]; other site 400667007469 FAD binding motif [chemical binding]; other site 400667007470 catalytic residues [active] 400667007471 NAD binding pocket [chemical binding]; other site 400667007472 phosphate binding motif [ion binding]; other site 400667007473 beta-alpha-beta structure motif; other site 400667007474 Uncharacterized conserved protein [Function unknown]; Region: COG1434 400667007475 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 400667007476 putative active site [active] 400667007477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 400667007478 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 400667007479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 400667007480 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 400667007481 Predicted small secreted protein [Function unknown]; Region: COG5510 400667007482 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 400667007483 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 400667007484 metal binding site [ion binding]; metal-binding site 400667007485 dimer interface [polypeptide binding]; other site 400667007486 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 400667007487 putative binding surface; other site 400667007488 active site 400667007489 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 400667007490 putative binding surface; other site 400667007491 active site 400667007492 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 400667007493 putative binding surface; other site 400667007494 active site 400667007495 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 400667007496 putative binding surface; other site 400667007497 active site 400667007498 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 400667007499 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 400667007500 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 400667007501 ATP binding site [chemical binding]; other site 400667007502 Mg2+ binding site [ion binding]; other site 400667007503 G-X-G motif; other site 400667007504 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 400667007505 Response regulator receiver domain; Region: Response_reg; pfam00072 400667007506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667007507 active site 400667007508 phosphorylation site [posttranslational modification] 400667007509 intermolecular recognition site; other site 400667007510 dimerization interface [polypeptide binding]; other site 400667007511 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 400667007512 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400667007513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400667007514 dimer interface [polypeptide binding]; other site 400667007515 putative CheW interface [polypeptide binding]; other site 400667007516 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 400667007517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667007518 active site 400667007519 phosphorylation site [posttranslational modification] 400667007520 intermolecular recognition site; other site 400667007521 dimerization interface [polypeptide binding]; other site 400667007522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667007523 Response regulator receiver domain; Region: Response_reg; pfam00072 400667007524 active site 400667007525 phosphorylation site [posttranslational modification] 400667007526 intermolecular recognition site; other site 400667007527 dimerization interface [polypeptide binding]; other site 400667007528 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400667007529 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667007530 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 400667007531 prolyl-tRNA synthetase; Provisional; Region: PRK09194 400667007532 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 400667007533 dimer interface [polypeptide binding]; other site 400667007534 motif 1; other site 400667007535 active site 400667007536 motif 2; other site 400667007537 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 400667007538 putative deacylase active site [active] 400667007539 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 400667007540 active site 400667007541 motif 3; other site 400667007542 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 400667007543 anticodon binding site; other site 400667007544 Uncharacterized conserved protein [Function unknown]; Region: COG3422 400667007545 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 400667007546 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 400667007547 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 400667007548 PhnA protein; Region: PhnA; pfam03831 400667007549 Uncharacterized conserved protein [Function unknown]; Region: COG3189 400667007550 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 400667007551 putative hydrophobic ligand binding site [chemical binding]; other site 400667007552 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 400667007553 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 400667007554 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 400667007555 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 400667007556 catalytic residues [active] 400667007557 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400667007558 Membrane transport protein; Region: Mem_trans; cl09117 400667007559 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400667007560 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 400667007561 active site 400667007562 FMN binding site [chemical binding]; other site 400667007563 substrate binding site [chemical binding]; other site 400667007564 homotetramer interface [polypeptide binding]; other site 400667007565 catalytic residue [active] 400667007566 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667007567 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 400667007568 N-terminal plug; other site 400667007569 ligand-binding site [chemical binding]; other site 400667007570 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 400667007571 DNA binding site [nucleotide binding] 400667007572 active site 400667007573 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 400667007574 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 400667007575 DNA binding site [nucleotide binding] 400667007576 turnover-facilitating residue; other site 400667007577 intercalation triad [nucleotide binding]; other site 400667007578 8OG recognition residue [nucleotide binding]; other site 400667007579 putative reading head residues; other site 400667007580 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 400667007581 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 400667007582 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 400667007583 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 400667007584 dimerization interface [polypeptide binding]; other site 400667007585 putative catalytic residue [active] 400667007586 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 400667007587 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 400667007588 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 400667007589 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 400667007590 G2 box; other site 400667007591 Switch I region; other site 400667007592 G3 box; other site 400667007593 Switch II region; other site 400667007594 GTP/Mg2+ binding site [chemical binding]; other site 400667007595 G4 box; other site 400667007596 G5 box; other site 400667007597 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 400667007598 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 400667007599 xanthine permease; Region: pbuX; TIGR03173 400667007600 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 400667007601 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 400667007602 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 400667007603 S-adenosylmethionine binding site [chemical binding]; other site 400667007604 Amino acid permease; Region: AA_permease; pfam00324 400667007605 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 400667007606 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 400667007607 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667007608 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667007609 ligand binding site [chemical binding]; other site 400667007610 Type II transport protein GspH; Region: GspH; pfam12019 400667007611 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 400667007612 dimer interface [polypeptide binding]; other site 400667007613 active site 400667007614 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 400667007615 dimer interface [polypeptide binding]; other site 400667007616 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 400667007617 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 400667007618 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400667007619 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 400667007620 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 400667007621 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400667007622 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 400667007623 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 400667007624 Trp docking motif [polypeptide binding]; other site 400667007625 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 400667007626 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 400667007627 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 400667007628 CoA-transferase family III; Region: CoA_transf_3; pfam02515 400667007629 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667007630 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667007631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667007632 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 400667007633 dimer interface [polypeptide binding]; other site 400667007634 active site 400667007635 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 400667007636 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 400667007637 substrate binding site [chemical binding]; other site 400667007638 oxyanion hole (OAH) forming residues; other site 400667007639 trimer interface [polypeptide binding]; other site 400667007640 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 400667007641 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 400667007642 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400667007643 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 400667007644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667007645 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400667007646 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 400667007647 S-adenosylmethionine binding site [chemical binding]; other site 400667007648 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 400667007649 Haemolysin-III related; Region: HlyIII; cl03831 400667007650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667007651 putative substrate translocation pore; other site 400667007652 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 400667007653 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 400667007654 SEC-C motif; Region: SEC-C; pfam02810 400667007655 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667007656 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 400667007657 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 400667007658 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 400667007659 active site 400667007660 catalytic residues [active] 400667007661 Sporulation related domain; Region: SPOR; cl10051 400667007662 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 400667007663 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 400667007664 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400667007665 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 400667007666 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 400667007667 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 400667007668 substrate binding site [chemical binding]; other site 400667007669 active site 400667007670 catalytic residues [active] 400667007671 heterodimer interface [polypeptide binding]; other site 400667007672 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667007673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667007674 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 400667007675 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667007676 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 400667007677 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 400667007678 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 400667007679 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 400667007680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667007681 catalytic residue [active] 400667007682 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 400667007683 active site 400667007684 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 400667007685 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 400667007686 N-terminal plug; other site 400667007687 ligand-binding site [chemical binding]; other site 400667007688 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 400667007689 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 400667007690 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 400667007691 active site 400667007692 META domain; Region: META; pfam03724 400667007693 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 400667007694 Fatty acid desaturase; Region: FA_desaturase; pfam00487 400667007695 Di-iron ligands [ion binding]; other site 400667007696 Uncharacterized conserved protein [Function unknown]; Region: COG0397 400667007697 hypothetical protein; Validated; Region: PRK00029 400667007698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667007699 active site 400667007700 phosphorylation site [posttranslational modification] 400667007701 intermolecular recognition site; other site 400667007702 dimerization interface [polypeptide binding]; other site 400667007703 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 400667007704 DNA binding site [nucleotide binding] 400667007705 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 400667007706 dimerization interface [polypeptide binding]; other site 400667007707 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 400667007708 dimer interface [polypeptide binding]; other site 400667007709 phosphorylation site [posttranslational modification] 400667007710 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 400667007711 ATP binding site [chemical binding]; other site 400667007712 Mg2+ binding site [ion binding]; other site 400667007713 G-X-G motif; other site 400667007714 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667007715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667007716 active site 400667007717 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400667007718 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667007719 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667007720 active site 400667007721 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400667007722 Predicted membrane protein [Function unknown]; Region: COG3223 400667007723 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 400667007724 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 400667007725 putative active site [active] 400667007726 putative catalytic site [active] 400667007727 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 400667007728 PLD-like domain; Region: PLDc_2; pfam13091 400667007729 putative active site [active] 400667007730 putative catalytic site [active] 400667007731 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 400667007732 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 400667007733 N-terminal plug; other site 400667007734 ligand-binding site [chemical binding]; other site 400667007735 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 400667007736 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 400667007737 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 400667007738 dimer interface [polypeptide binding]; other site 400667007739 anticodon binding site; other site 400667007740 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 400667007741 homodimer interface [polypeptide binding]; other site 400667007742 motif 1; other site 400667007743 active site 400667007744 motif 2; other site 400667007745 GAD domain; Region: GAD; pfam02938 400667007746 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 400667007747 active site 400667007748 motif 3; other site 400667007749 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 400667007750 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 400667007751 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 400667007752 homodimer interface [polypeptide binding]; other site 400667007753 active site 400667007754 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400667007755 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 400667007756 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 400667007757 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 400667007758 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 400667007759 putative active site [active] 400667007760 putative metal binding site [ion binding]; other site 400667007761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 400667007762 phosphorylation site [posttranslational modification] 400667007763 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 400667007764 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 400667007765 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 400667007766 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 400667007767 homodimer interface [polypeptide binding]; other site 400667007768 substrate-cofactor binding pocket; other site 400667007769 catalytic residue [active] 400667007770 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 400667007771 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400667007772 metal binding triad; other site 400667007773 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 400667007774 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400667007775 metal binding triad; other site 400667007776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400667007777 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 400667007778 dimer interface [polypeptide binding]; other site 400667007779 phosphorylation site [posttranslational modification] 400667007780 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 400667007781 ATP binding site [chemical binding]; other site 400667007782 Mg2+ binding site [ion binding]; other site 400667007783 G-X-G motif; other site 400667007784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400667007785 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 400667007786 active site 400667007787 Int/Topo IB signature motif; other site 400667007788 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 400667007789 LemA family; Region: LemA; cl00742 400667007790 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 400667007791 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 400667007792 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 400667007793 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 400667007794 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 400667007795 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 400667007796 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 400667007797 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 400667007798 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 400667007799 Protein export membrane protein; Region: SecD_SecF; pfam02355 400667007800 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 400667007801 Flavoprotein; Region: Flavoprotein; pfam02441 400667007802 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 400667007803 hypothetical protein; Reviewed; Region: PRK00024 400667007804 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 400667007805 MPN+ (JAMM) motif; other site 400667007806 Zinc-binding site [ion binding]; other site 400667007807 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 400667007808 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 400667007809 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 400667007810 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 400667007811 Intracellular septation protein A; Region: IspA; pfam04279 400667007812 YciI-like protein; Reviewed; Region: PRK11370 400667007813 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 400667007814 Uncharacterized conserved protein [Function unknown]; Region: COG4121 400667007815 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400667007816 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 400667007817 active site residue [active] 400667007818 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cl00723 400667007819 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cl00723 400667007820 integrase; Provisional; Region: PRK09692 400667007821 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 400667007822 active site 400667007823 Int/Topo IB signature motif; other site 400667007824 Restriction endonuclease; Region: Mrr_cat; pfam04471 400667007825 AAA ATPase domain; Region: AAA_16; pfam13191 400667007826 AAA domain; Region: AAA_22; pfam13401 400667007827 Heavy-metal-associated domain; Region: HMA; pfam00403 400667007828 Heavy-metal-associated domain; Region: HMA; pfam00403 400667007829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667007830 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 400667007831 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 400667007832 G4 box; other site 400667007833 G5 box; other site 400667007834 Nucleoside recognition; Region: Gate; pfam07670 400667007835 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 400667007836 Nucleoside recognition; Region: Gate; pfam07670 400667007837 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 400667007838 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 400667007839 HlyD family secretion protein; Region: HlyD_2; pfam12700 400667007840 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667007841 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 400667007842 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 400667007843 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 400667007844 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 400667007845 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 400667007846 Multicopper oxidase; Region: Cu-oxidase; pfam00394 400667007847 Forkhead N-terminal region; Region: Fork_head_N; pfam08430 400667007848 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 400667007849 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 400667007850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667007851 intermolecular recognition site; other site 400667007852 active site 400667007853 dimerization interface [polypeptide binding]; other site 400667007854 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 400667007855 DNA binding site [nucleotide binding] 400667007856 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 400667007857 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 400667007858 dimerization interface [polypeptide binding]; other site 400667007859 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 400667007860 dimer interface [polypeptide binding]; other site 400667007861 phosphorylation site [posttranslational modification] 400667007862 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 400667007863 ATP binding site [chemical binding]; other site 400667007864 Mg2+ binding site [ion binding]; other site 400667007865 G-X-G motif; other site 400667007866 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 400667007867 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 400667007868 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 400667007869 active site 400667007870 motif I; other site 400667007871 motif II; other site 400667007872 CopC domain; Region: CopC; pfam04234 400667007873 Copper resistance protein D; Region: CopD; cl00563 400667007874 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 400667007875 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 400667007876 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 400667007877 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 400667007878 CoenzymeA binding site [chemical binding]; other site 400667007879 subunit interaction site [polypeptide binding]; other site 400667007880 PHB binding site; other site 400667007881 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 400667007882 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 400667007883 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 400667007884 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 400667007885 catalytic residues [active] 400667007886 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400667007887 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400667007888 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400667007889 Putative phosphatase (DUF442); Region: DUF442; cl17385 400667007890 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 400667007891 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667007892 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667007893 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400667007894 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 400667007895 substrate binding site [chemical binding]; other site 400667007896 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 400667007897 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 400667007898 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400667007899 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 400667007900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667007901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667007902 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 400667007903 putative effector binding pocket; other site 400667007904 dimerization interface [polypeptide binding]; other site 400667007905 GrpE; Region: GrpE; pfam01025 400667007906 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 400667007907 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 400667007908 dimer interface [polypeptide binding]; other site 400667007909 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 400667007910 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 400667007911 nucleotide binding site [chemical binding]; other site 400667007912 Transglycosylase SLT domain; Region: SLT_2; pfam13406 400667007913 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 400667007914 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667007915 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 400667007916 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 400667007917 ATP-grasp domain; Region: ATP-grasp; pfam02222 400667007918 AIR carboxylase; Region: AIRC; pfam00731 400667007919 Protein of unknown function, DUF486; Region: DUF486; cl01236 400667007920 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 400667007921 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400667007922 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400667007923 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 400667007924 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 400667007925 active site 400667007926 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 400667007927 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 400667007928 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 400667007929 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400667007930 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 400667007931 [2Fe-2S] cluster binding site [ion binding]; other site 400667007932 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 400667007933 hydrophobic ligand binding site; other site 400667007934 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 400667007935 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 400667007936 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667007937 active site 400667007938 Predicted membrane protein [Function unknown]; Region: COG2261 400667007939 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 400667007940 dimerization domain [polypeptide binding]; other site 400667007941 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 400667007942 dimer interface [polypeptide binding]; other site 400667007943 catalytic residues [active] 400667007944 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 400667007945 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 400667007946 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 400667007947 putative metal binding site [ion binding]; other site 400667007948 putative homodimer interface [polypeptide binding]; other site 400667007949 putative homotetramer interface [polypeptide binding]; other site 400667007950 putative homodimer-homodimer interface [polypeptide binding]; other site 400667007951 putative allosteric switch controlling residues; other site 400667007952 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 400667007953 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 400667007954 trmE is a tRNA modification GTPase; Region: trmE; cd04164 400667007955 G1 box; other site 400667007956 GTP/Mg2+ binding site [chemical binding]; other site 400667007957 Switch I region; other site 400667007958 G2 box; other site 400667007959 Switch II region; other site 400667007960 G3 box; other site 400667007961 G4 box; other site 400667007962 G5 box; other site 400667007963 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 400667007964 membrane protein insertase; Provisional; Region: PRK01318 400667007965 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 400667007966 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 400667007967 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 400667007968 hypothetical protein; Provisional; Region: PRK14386 400667007969 Ribonuclease P; Region: Ribonuclease_P; pfam00825 400667007970 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 400667007971 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 400667007972 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667007973 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667007974 metal binding site [ion binding]; metal-binding site 400667007975 active site 400667007976 I-site; other site 400667007977 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400667007978 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400667007979 ligand binding site [chemical binding]; other site 400667007980 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 400667007981 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 400667007982 putative active site [active] 400667007983 putative metal binding site [ion binding]; other site 400667007984 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 400667007985 putative active site [active] 400667007986 catalytic site [active] 400667007987 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 400667007988 PLD-like domain; Region: PLDc_2; pfam13091 400667007989 putative active site [active] 400667007990 catalytic site [active] 400667007991 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 400667007992 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400667007993 putative acyl-acceptor binding pocket; other site 400667007994 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 400667007995 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 400667007996 HflX GTPase family; Region: HflX; cd01878 400667007997 G1 box; other site 400667007998 GTP/Mg2+ binding site [chemical binding]; other site 400667007999 Switch I region; other site 400667008000 G2 box; other site 400667008001 G3 box; other site 400667008002 Switch II region; other site 400667008003 G4 box; other site 400667008004 G5 box; other site 400667008005 LrgB-like family; Region: LrgB; cl00596 400667008006 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 400667008007 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 400667008008 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400667008009 active site 400667008010 metal binding site [ion binding]; metal-binding site 400667008011 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 400667008012 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 400667008013 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 400667008014 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 400667008015 23S rRNA interface [nucleotide binding]; other site 400667008016 L3 interface [polypeptide binding]; other site 400667008017 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 400667008018 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667008019 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 400667008020 dimer interface [polypeptide binding]; other site 400667008021 N-terminal domain interface [polypeptide binding]; other site 400667008022 Stringent starvation protein B; Region: SspB; cl01120 400667008023 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 400667008024 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400667008025 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400667008026 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 400667008027 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 400667008028 carboxyltransferase (CT) interaction site; other site 400667008029 biotinylation site [posttranslational modification]; other site 400667008030 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 400667008031 substrate binding site [chemical binding]; other site 400667008032 oxyanion hole (OAH) forming residues; other site 400667008033 trimer interface [polypeptide binding]; other site 400667008034 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667008035 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667008036 active site 400667008037 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 400667008038 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 400667008039 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 400667008040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667008041 NAD(P) binding site [chemical binding]; other site 400667008042 active site 400667008043 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 400667008044 RUN domain; Region: RUN; cl02689 400667008045 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667008046 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667008047 active site 400667008048 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 400667008049 Uncharacterized conserved protein [Function unknown]; Region: COG3791 400667008050 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 400667008051 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 400667008052 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 400667008053 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 400667008054 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 400667008055 malate dehydrogenase; Provisional; Region: PRK05442 400667008056 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 400667008057 NAD(P) binding site [chemical binding]; other site 400667008058 dimer interface [polypeptide binding]; other site 400667008059 malate binding site [chemical binding]; other site 400667008060 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 400667008061 B2 nucleotide binding pocket [chemical binding]; other site 400667008062 CAS motifs; other site 400667008063 active site 400667008064 B1 nucleotide binding pocket [chemical binding]; other site 400667008065 lytic murein transglycosylase; Provisional; Region: PRK11619 400667008066 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 400667008067 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400667008068 catalytic residue [active] 400667008069 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 400667008070 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 400667008071 TRAM domain; Region: TRAM; cl01282 400667008072 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 400667008073 PhoH-like protein; Region: PhoH; pfam02562 400667008074 metal-binding heat shock protein; Provisional; Region: PRK00016 400667008075 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 400667008076 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 400667008077 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 400667008078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667008079 active site 400667008080 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400667008081 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667008082 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 400667008083 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400667008084 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667008085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667008086 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 400667008087 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 400667008088 YcxB-like protein; Region: YcxB; pfam14317 400667008089 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 400667008090 dimer interface [polypeptide binding]; other site 400667008091 FMN binding site [chemical binding]; other site 400667008092 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400667008093 ribonuclease R; Region: RNase_R; TIGR02063 400667008094 RNB domain; Region: RNB; pfam00773 400667008095 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 400667008096 RNA binding site [nucleotide binding]; other site 400667008097 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 400667008098 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 400667008099 active site 400667008100 Zn binding site [ion binding]; other site 400667008101 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 400667008102 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400667008103 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 400667008104 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 400667008105 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667008106 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667008107 active site 400667008108 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400667008109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400667008110 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 400667008111 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 400667008112 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 400667008113 alphaNTD homodimer interface [polypeptide binding]; other site 400667008114 alphaNTD - beta interaction site [polypeptide binding]; other site 400667008115 alphaNTD - beta' interaction site [polypeptide binding]; other site 400667008116 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 400667008117 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 400667008118 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 400667008119 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 400667008120 RNA binding surface [nucleotide binding]; other site 400667008121 30S ribosomal protein S11; Validated; Region: PRK05309 400667008122 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 400667008123 30S ribosomal protein S13; Region: bact_S13; TIGR03631 400667008124 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 400667008125 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 400667008126 SecY translocase; Region: SecY; pfam00344 400667008127 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 400667008128 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 400667008129 23S rRNA binding site [nucleotide binding]; other site 400667008130 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 400667008131 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 400667008132 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 400667008133 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 400667008134 5S rRNA interface [nucleotide binding]; other site 400667008135 23S rRNA interface [nucleotide binding]; other site 400667008136 L5 interface [polypeptide binding]; other site 400667008137 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 400667008138 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 400667008139 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 400667008140 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 400667008141 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 400667008142 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 400667008143 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 400667008144 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 400667008145 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 400667008146 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 400667008147 RNA binding site [nucleotide binding]; other site 400667008148 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 400667008149 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 400667008150 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 400667008151 23S rRNA interface [nucleotide binding]; other site 400667008152 putative translocon interaction site; other site 400667008153 signal recognition particle (SRP54) interaction site; other site 400667008154 L23 interface [polypeptide binding]; other site 400667008155 trigger factor interaction site; other site 400667008156 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 400667008157 23S rRNA interface [nucleotide binding]; other site 400667008158 5S rRNA interface [nucleotide binding]; other site 400667008159 putative antibiotic binding site [chemical binding]; other site 400667008160 L25 interface [polypeptide binding]; other site 400667008161 L27 interface [polypeptide binding]; other site 400667008162 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 400667008163 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 400667008164 G-X-X-G motif; other site 400667008165 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 400667008166 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 400667008167 putative translocon binding site; other site 400667008168 protein-rRNA interface [nucleotide binding]; other site 400667008169 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 400667008170 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 400667008171 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 400667008172 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 400667008173 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 400667008174 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 400667008175 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 400667008176 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 400667008177 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 400667008178 catalytic triad [active] 400667008179 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 400667008180 cystathionine beta-lyase; Provisional; Region: PRK07050 400667008181 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400667008182 catalytic residue [active] 400667008183 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 400667008184 Zonular occludens toxin (Zot); Region: Zot; cl17485 400667008185 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 400667008186 heme-binding site [chemical binding]; other site 400667008187 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 400667008188 FAD binding pocket [chemical binding]; other site 400667008189 conserved FAD binding motif [chemical binding]; other site 400667008190 phosphate binding motif [ion binding]; other site 400667008191 Transcriptional regulator; Region: Rrf2; cl17282 400667008192 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 400667008193 G1 box; other site 400667008194 GTP/Mg2+ binding site [chemical binding]; other site 400667008195 Switch I region; other site 400667008196 G2 box; other site 400667008197 G3 box; other site 400667008198 Switch II region; other site 400667008199 G4 box; other site 400667008200 G5 box; other site 400667008201 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667008202 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400667008203 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 400667008204 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 400667008205 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 400667008206 active site 400667008207 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 400667008208 catalytic triad [active] 400667008209 dimer interface [polypeptide binding]; other site 400667008210 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 400667008211 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 400667008212 putative acyl-acceptor binding pocket; other site 400667008213 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 400667008214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667008215 NADH(P)-binding; Region: NAD_binding_10; pfam13460 400667008216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667008217 NAD(P) binding site [chemical binding]; other site 400667008218 active site 400667008219 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 400667008220 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 400667008221 ssDNA binding site; other site 400667008222 generic binding surface II; other site 400667008223 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 400667008224 ATP binding site [chemical binding]; other site 400667008225 putative Mg++ binding site [ion binding]; other site 400667008226 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 400667008227 nucleotide binding region [chemical binding]; other site 400667008228 ATP-binding site [chemical binding]; other site 400667008229 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 400667008230 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667008231 active site 400667008232 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 400667008233 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 400667008234 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 400667008235 oligomer interface [polypeptide binding]; other site 400667008236 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 400667008237 anti sigma factor interaction site; other site 400667008238 regulatory phosphorylation site [posttranslational modification]; other site 400667008239 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 400667008240 mce related protein; Region: MCE; pfam02470 400667008241 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 400667008242 Permease; Region: Permease; cl00510 400667008243 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 400667008244 Walker A/P-loop; other site 400667008245 ATP binding site [chemical binding]; other site 400667008246 ABC transporter; Region: ABC_tran; pfam00005 400667008247 Q-loop/lid; other site 400667008248 ABC transporter signature motif; other site 400667008249 Walker B; other site 400667008250 D-loop; other site 400667008251 H-loop/switch region; other site 400667008252 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 400667008253 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 400667008254 ATP binding site [chemical binding]; other site 400667008255 Mg++ binding site [ion binding]; other site 400667008256 motif III; other site 400667008257 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 400667008258 nucleotide binding region [chemical binding]; other site 400667008259 ATP-binding site [chemical binding]; other site 400667008260 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400667008261 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 400667008262 active site 400667008263 dimerization interface [polypeptide binding]; other site 400667008264 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 400667008265 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 400667008266 TPP-binding site; other site 400667008267 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 400667008268 PYR/PP interface [polypeptide binding]; other site 400667008269 dimer interface [polypeptide binding]; other site 400667008270 TPP binding site [chemical binding]; other site 400667008271 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400667008272 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 400667008273 dimerization interface [polypeptide binding]; other site 400667008274 active site 400667008275 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 400667008276 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 400667008277 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 400667008278 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 400667008279 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 400667008280 shikimate binding site; other site 400667008281 NAD(P) binding site [chemical binding]; other site 400667008282 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400667008283 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400667008284 active site 400667008285 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400667008286 PspC domain; Region: PspC; pfam04024 400667008287 HPP family; Region: HPP; pfam04982 400667008288 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 400667008289 FOG: CBS domain [General function prediction only]; Region: COG0517 400667008290 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 400667008291 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 400667008292 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 400667008293 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 400667008294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667008295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667008296 putative substrate translocation pore; other site 400667008297 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 400667008298 dimer interface [polypeptide binding]; other site 400667008299 active site 400667008300 motif 2; other site 400667008301 motif 3; other site 400667008302 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 400667008303 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 400667008304 Active site serine [active] 400667008305 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400667008306 EamA-like transporter family; Region: EamA; pfam00892 400667008307 EamA-like transporter family; Region: EamA; pfam00892 400667008308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667008309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667008310 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 400667008311 dimerization interface [polypeptide binding]; other site 400667008312 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 400667008313 active site 400667008314 catalytic residues [active] 400667008315 hypothetical protein; Provisional; Region: PRK12472 400667008316 succinylglutamate desuccinylase; Provisional; Region: PRK05324 400667008317 active site 400667008318 succinylarginine dihydrolase; Provisional; Region: PRK13281 400667008319 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 400667008320 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 400667008321 NAD(P) binding site [chemical binding]; other site 400667008322 catalytic residues [active] 400667008323 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 400667008324 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 400667008325 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 400667008326 inhibitor-cofactor binding pocket; inhibition site 400667008327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667008328 catalytic residue [active] 400667008329 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 400667008330 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 400667008331 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 400667008332 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 400667008333 NAD(P) binding site [chemical binding]; other site 400667008334 S-methylmethionine transporter; Provisional; Region: PRK11387 400667008335 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 400667008336 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 400667008337 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 400667008338 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 400667008339 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 400667008340 Magnesium ion binding site [ion binding]; other site 400667008341 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 400667008342 Domain of unknown function DUF20; Region: UPF0118; pfam01594 400667008343 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 400667008344 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 400667008345 E-class dimer interface [polypeptide binding]; other site 400667008346 P-class dimer interface [polypeptide binding]; other site 400667008347 active site 400667008348 Cu2+ binding site [ion binding]; other site 400667008349 Zn2+ binding site [ion binding]; other site 400667008350 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 400667008351 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 400667008352 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 400667008353 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667008354 putative substrate translocation pore; other site 400667008355 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 400667008356 Uncharacterized conserved protein [Function unknown]; Region: COG1359 400667008357 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 400667008358 FAD binding domain; Region: FAD_binding_4; pfam01565 400667008359 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 400667008360 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 400667008361 NAD binding site [chemical binding]; other site 400667008362 tetramer interface [polypeptide binding]; other site 400667008363 catalytic site [active] 400667008364 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 400667008365 L-serine binding site [chemical binding]; other site 400667008366 ACT domain interface; other site 400667008367 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400667008368 EamA-like transporter family; Region: EamA; pfam00892 400667008369 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 400667008370 Hemerythrin-like domain; Region: Hr-like; cd12108 400667008371 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400667008372 hypothetical protein; Provisional; Region: PRK10621 400667008373 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 400667008374 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 400667008375 RNA binding site [nucleotide binding]; other site 400667008376 active site 400667008377 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 400667008378 lipase chaperone; Provisional; Region: PRK01294 400667008379 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 400667008380 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 400667008381 Putative serine esterase (DUF676); Region: DUF676; pfam05057 400667008382 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 400667008383 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 400667008384 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 400667008385 RimM N-terminal domain; Region: RimM; pfam01782 400667008386 PRC-barrel domain; Region: PRC; pfam05239 400667008387 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 400667008388 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 400667008389 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 400667008390 von Willebrand factor type A domain; Region: VWA_2; pfam13519 400667008391 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 400667008392 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 400667008393 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 400667008394 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 400667008395 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 400667008396 catalytic site [active] 400667008397 G-X2-G-X-G-K; other site 400667008398 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 400667008399 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 400667008400 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400667008401 Zn2+ binding site [ion binding]; other site 400667008402 Mg2+ binding site [ion binding]; other site 400667008403 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 400667008404 synthetase active site [active] 400667008405 NTP binding site [chemical binding]; other site 400667008406 metal binding site [ion binding]; metal-binding site 400667008407 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 400667008408 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 400667008409 ACT domain; Region: ACT_4; pfam13291 400667008410 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 400667008411 homotrimer interaction site [polypeptide binding]; other site 400667008412 putative active site [active] 400667008413 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 400667008414 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 400667008415 heme binding site [chemical binding]; other site 400667008416 ferroxidase diiron center [ion binding]; other site 400667008417 ferroxidase pore; other site 400667008418 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 400667008419 O-Antigen ligase; Region: Wzy_C; pfam04932 400667008420 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 400667008421 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 400667008422 Pilin (bacterial filament); Region: Pilin; pfam00114 400667008423 Repair protein; Region: Repair_PSII; pfam04536 400667008424 Repair protein; Region: Repair_PSII; pfam04536 400667008425 LemA family; Region: LemA; pfam04011 400667008426 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 400667008427 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 400667008428 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 400667008429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400667008430 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400667008431 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 400667008432 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 400667008433 active site 400667008434 dimer interface [polypeptide binding]; other site 400667008435 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 400667008436 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 400667008437 active site 400667008438 FMN binding site [chemical binding]; other site 400667008439 substrate binding site [chemical binding]; other site 400667008440 3Fe-4S cluster binding site [ion binding]; other site 400667008441 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 400667008442 domain interface; other site 400667008443 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 400667008444 active site 400667008445 dimer interface [polypeptide binding]; other site 400667008446 metal binding site [ion binding]; metal-binding site 400667008447 Shikimate kinase; Region: SKI; pfam01202 400667008448 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 400667008449 ADP binding site [chemical binding]; other site 400667008450 magnesium binding site [ion binding]; other site 400667008451 putative shikimate binding site; other site 400667008452 AMIN domain; Region: AMIN; pfam11741 400667008453 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 400667008454 Secretin and TonB N terminus short domain; Region: STN; smart00965 400667008455 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 400667008456 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 400667008457 Pilus assembly protein, PilP; Region: PilP; pfam04351 400667008458 Pilus assembly protein, PilO; Region: PilO; pfam04350 400667008459 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 400667008460 Competence protein A; Region: Competence_A; pfam11104 400667008461 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 400667008462 Transglycosylase; Region: Transgly; pfam00912 400667008463 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 400667008464 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 400667008465 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400667008466 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 400667008467 S-adenosylmethionine binding site [chemical binding]; other site 400667008468 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 400667008469 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 400667008470 putative catalytic motif [active] 400667008471 putative substrate binding site [chemical binding]; other site 400667008472 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 400667008473 Mg++ binding site [ion binding]; other site 400667008474 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 400667008475 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400667008476 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400667008477 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 400667008478 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400667008479 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400667008480 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 400667008481 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 400667008482 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 400667008483 Cell division protein FtsL; Region: FtsL; pfam04999 400667008484 MraW methylase family; Region: Methyltransf_5; cl17771 400667008485 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 400667008486 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 400667008487 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400667008488 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400667008489 active site 400667008490 HIGH motif; other site 400667008491 nucleotide binding site [chemical binding]; other site 400667008492 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 400667008493 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 400667008494 active site 400667008495 KMSKS motif; other site 400667008496 S-methylmethionine transporter; Provisional; Region: PRK11387 400667008497 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 400667008498 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 400667008499 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400667008500 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 400667008501 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667008502 Outer membrane efflux protein; Region: OEP; pfam02321 400667008503 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 400667008504 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667008505 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667008506 ABC transporter; Region: ABC_tran_2; pfam12848 400667008507 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400667008508 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 400667008509 homodimer interface [polypeptide binding]; other site 400667008510 substrate-cofactor binding pocket; other site 400667008511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667008512 catalytic residue [active] 400667008513 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 400667008514 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 400667008515 conserved cys residue [active] 400667008516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667008517 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667008518 classical (c) SDRs; Region: SDR_c; cd05233 400667008519 NAD(P) binding site [chemical binding]; other site 400667008520 active site 400667008521 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 400667008522 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400667008523 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_cladeC; cd03378 400667008524 active site clefts [active] 400667008525 zinc binding site [ion binding]; other site 400667008526 dimer interface [polypeptide binding]; other site 400667008527 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 400667008528 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 400667008529 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 400667008530 RNA binding site [nucleotide binding]; other site 400667008531 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 400667008532 osmolarity response regulator; Provisional; Region: ompR; PRK09468 400667008533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667008534 active site 400667008535 phosphorylation site [posttranslational modification] 400667008536 intermolecular recognition site; other site 400667008537 dimerization interface [polypeptide binding]; other site 400667008538 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 400667008539 DNA binding site [nucleotide binding] 400667008540 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 400667008541 HAMP domain; Region: HAMP; pfam00672 400667008542 dimerization interface [polypeptide binding]; other site 400667008543 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 400667008544 dimer interface [polypeptide binding]; other site 400667008545 phosphorylation site [posttranslational modification] 400667008546 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 400667008547 ATP binding site [chemical binding]; other site 400667008548 Mg2+ binding site [ion binding]; other site 400667008549 G-X-G motif; other site 400667008550 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 400667008551 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 400667008552 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 400667008553 putative acetyltransferase; Provisional; Region: PRK03624 400667008554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667008555 Coenzyme A binding pocket [chemical binding]; other site 400667008556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400667008557 Coenzyme A binding pocket [chemical binding]; other site 400667008558 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 400667008559 putative active site pocket [active] 400667008560 4-fold oligomerization interface [polypeptide binding]; other site 400667008561 metal binding residues [ion binding]; metal-binding site 400667008562 3-fold/trimer interface [polypeptide binding]; other site 400667008563 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 400667008564 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 400667008565 catalytic triad [active] 400667008566 Protein of unknown function (DUF805); Region: DUF805; pfam05656 400667008567 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 400667008568 catalytic site [active] 400667008569 putative active site [active] 400667008570 putative substrate binding site [chemical binding]; other site 400667008571 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 400667008572 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 400667008573 catalytic residues [active] 400667008574 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400667008575 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 400667008576 non-specific DNA binding site [nucleotide binding]; other site 400667008577 salt bridge; other site 400667008578 sequence-specific DNA binding site [nucleotide binding]; other site 400667008579 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400667008580 EamA-like transporter family; Region: EamA; pfam00892 400667008581 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 400667008582 Predicted membrane protein [Function unknown]; Region: COG3671 400667008583 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 400667008584 homoserine kinase; Provisional; Region: PRK05231 400667008585 Phosphotransferase enzyme family; Region: APH; pfam01636 400667008586 active site 400667008587 substrate binding site [chemical binding]; other site 400667008588 ATP binding site [chemical binding]; other site 400667008589 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 400667008590 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 400667008591 glutamase interaction surface [polypeptide binding]; other site 400667008592 substrate binding site [chemical binding]; other site 400667008593 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400667008594 Helix-turn-helix domain; Region: HTH_18; pfam12833 400667008595 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667008596 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 400667008597 amphipathic channel; other site 400667008598 Asn-Pro-Ala signature motifs; other site 400667008599 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667008600 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 400667008601 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 400667008602 active site 400667008603 substrate binding site [chemical binding]; other site 400667008604 Mg2+ binding site [ion binding]; other site 400667008605 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 400667008606 potassium uptake protein; Region: kup; TIGR00794 400667008607 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667008608 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667008609 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 400667008610 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 400667008611 conserved cys residue [active] 400667008612 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 400667008613 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667008614 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667008615 Predicted transcriptional regulators [Transcription]; Region: COG1733 400667008616 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400667008617 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 400667008618 Uncharacterized conserved protein [Function unknown]; Region: COG2128 400667008619 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400667008620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400667008621 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 400667008622 catalytic tetrad [active] 400667008623 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 400667008624 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400667008625 active site 400667008626 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400667008627 EamA-like transporter family; Region: EamA; pfam00892 400667008628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667008629 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 400667008630 dimerization interface [polypeptide binding]; other site 400667008631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667008632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667008633 putative substrate translocation pore; other site 400667008634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667008635 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 400667008636 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400667008637 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 400667008638 S-adenosylmethionine binding site [chemical binding]; other site 400667008639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400667008640 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 400667008641 Pirin-related protein [General function prediction only]; Region: COG1741 400667008642 Pirin; Region: Pirin; pfam02678 400667008643 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 400667008644 Isochorismatase family; Region: Isochorismatase; pfam00857 400667008645 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 400667008646 catalytic triad [active] 400667008647 dimer interface [polypeptide binding]; other site 400667008648 conserved cis-peptide bond; other site 400667008649 LysR family transcriptional regulator; Provisional; Region: PRK14997 400667008650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400667008651 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 400667008652 dimerization interface [polypeptide binding]; other site 400667008653 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400667008654 tetramerization interface [polypeptide binding]; other site 400667008655 NAD(P) binding site [chemical binding]; other site 400667008656 catalytic residues [active] 400667008657 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 400667008658 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 400667008659 inhibitor-cofactor binding pocket; inhibition site 400667008660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667008661 catalytic residue [active] 400667008662 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 400667008663 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667008664 DNA-binding site [nucleotide binding]; DNA binding site 400667008665 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 400667008666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667008667 homodimer interface [polypeptide binding]; other site 400667008668 catalytic residue [active] 400667008669 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 400667008670 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 400667008671 sequence-specific DNA binding site [nucleotide binding]; other site 400667008672 salt bridge; other site 400667008673 Cupin domain; Region: Cupin_2; pfam07883 400667008674 AzlC protein; Region: AzlC; cl00570 400667008675 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 400667008676 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 400667008677 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 400667008678 ssDNA binding site [nucleotide binding]; other site 400667008679 dimer interface [polypeptide binding]; other site 400667008680 tetramer (dimer of dimers) interface [polypeptide binding]; other site 400667008681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667008682 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400667008683 putative substrate translocation pore; other site 400667008684 hypothetical protein; Provisional; Region: PRK14013 400667008685 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 400667008686 GlpM protein; Region: GlpM; pfam06942 400667008687 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 400667008688 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 400667008689 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 400667008690 putative NAD(P) binding site [chemical binding]; other site 400667008691 putative dimer interface [polypeptide binding]; other site 400667008692 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 400667008693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400667008694 Q-loop/lid; other site 400667008695 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 400667008696 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 400667008697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667008698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667008699 metal binding site [ion binding]; metal-binding site 400667008700 active site 400667008701 I-site; other site 400667008702 BCCT family transporter; Region: BCCT; cl00569 400667008703 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 400667008704 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 400667008705 Na binding site [ion binding]; other site 400667008706 Protein of unknown function, DUF485; Region: DUF485; pfam04341 400667008707 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 400667008708 Na binding site [ion binding]; other site 400667008709 PAS fold; Region: PAS_7; pfam12860 400667008710 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 400667008711 putative active site [active] 400667008712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400667008713 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 400667008714 dimer interface [polypeptide binding]; other site 400667008715 phosphorylation site [posttranslational modification] 400667008716 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 400667008717 ATP binding site [chemical binding]; other site 400667008718 Mg2+ binding site [ion binding]; other site 400667008719 G-X-G motif; other site 400667008720 Response regulator receiver domain; Region: Response_reg; pfam00072 400667008721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667008722 active site 400667008723 phosphorylation site [posttranslational modification] 400667008724 intermolecular recognition site; other site 400667008725 dimerization interface [polypeptide binding]; other site 400667008726 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400667008727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667008728 active site 400667008729 phosphorylation site [posttranslational modification] 400667008730 intermolecular recognition site; other site 400667008731 dimerization interface [polypeptide binding]; other site 400667008732 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 400667008733 DNA binding residues [nucleotide binding] 400667008734 dimerization interface [polypeptide binding]; other site 400667008735 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400667008736 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400667008737 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 400667008738 dimer interface [polypeptide binding]; other site 400667008739 non-prolyl cis peptide bond; other site 400667008740 active site 400667008741 insertion regions; other site 400667008742 AsnC family; Region: AsnC_trans_reg; pfam01037 400667008743 Isochorismatase family; Region: Isochorismatase; pfam00857 400667008744 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 400667008745 catalytic triad [active] 400667008746 conserved cis-peptide bond; other site 400667008747 Peroxidase, family 2; Region: Peroxidase_2; pfam01328 400667008748 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 400667008749 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 400667008750 active site 400667008751 CoA binding site [chemical binding]; other site 400667008752 acyl-activating enzyme (AAE) consensus motif; other site 400667008753 AMP binding site [chemical binding]; other site 400667008754 acetate binding site [chemical binding]; other site 400667008755 Protein of unknown function (DUF805); Region: DUF805; pfam05656 400667008756 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 400667008757 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400667008758 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400667008759 RNA methyltransferase, RsmE family; Region: TIGR00046 400667008760 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 400667008761 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 400667008762 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 400667008763 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 400667008764 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400667008765 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 400667008766 FMN binding site [chemical binding]; other site 400667008767 active site 400667008768 substrate binding site [chemical binding]; other site 400667008769 catalytic residue [active] 400667008770 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 400667008771 putative DNA binding site [nucleotide binding]; other site 400667008772 dimerization interface [polypeptide binding]; other site 400667008773 putative Zn2+ binding site [ion binding]; other site 400667008774 peptide chain release factor 2; Validated; Region: prfB; PRK00578 400667008775 This domain is found in peptide chain release factors; Region: PCRF; smart00937 400667008776 RF-1 domain; Region: RF-1; pfam00472 400667008777 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 400667008778 DHH family; Region: DHH; pfam01368 400667008779 DHHA1 domain; Region: DHHA1; pfam02272 400667008780 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 400667008781 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 400667008782 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 400667008783 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 400667008784 active site 400667008785 substrate binding site [chemical binding]; other site 400667008786 metal binding site [ion binding]; metal-binding site 400667008787 IMP dehydrogenase / GMP reductase domain; Region: IMPDH; pfam00478 400667008788 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 400667008789 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 400667008790 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 400667008791 active site 400667008792 Flagellin N-methylase; Region: FliB; cl00497 400667008793 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 400667008794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 400667008795 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 400667008796 N-terminal plug; other site 400667008797 ligand-binding site [chemical binding]; other site 400667008798 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 400667008799 Predicted membrane protein [Function unknown]; Region: COG2119 400667008800 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 400667008801 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 400667008802 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 400667008803 E3 interaction surface; other site 400667008804 lipoyl attachment site [posttranslational modification]; other site 400667008805 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 400667008806 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 400667008807 E3 interaction surface; other site 400667008808 lipoyl attachment site [posttranslational modification]; other site 400667008809 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 400667008810 E3 interaction surface; other site 400667008811 lipoyl attachment site [posttranslational modification]; other site 400667008812 e3 binding domain; Region: E3_binding; pfam02817 400667008813 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 400667008814 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 400667008815 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 400667008816 dimer interface [polypeptide binding]; other site 400667008817 TPP-binding site [chemical binding]; other site 400667008818 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 400667008819 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400667008820 Peptidase family M23; Region: Peptidase_M23; pfam01551 400667008821 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 400667008822 cell division protein FtsZ; Validated; Region: PRK09330 400667008823 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 400667008824 nucleotide binding site [chemical binding]; other site 400667008825 SulA interaction site; other site 400667008826 Cell division protein FtsA; Region: FtsA; smart00842 400667008827 cell division protein FtsA; Region: ftsA; TIGR01174 400667008828 Cell division protein FtsA; Region: FtsA; pfam14450 400667008829 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 400667008830 Cell division protein FtsQ; Region: FtsQ; pfam03799 400667008831 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 400667008832 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 400667008833 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400667008834 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 400667008835 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 400667008836 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400667008837 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400667008838 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 400667008839 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 400667008840 homodimer interface [polypeptide binding]; other site 400667008841 active site 400667008842 glutathione synthetase; Provisional; Region: PRK05246 400667008843 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 400667008844 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 400667008845 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 400667008846 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400667008847 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 400667008848 N-terminal plug; other site 400667008849 ligand-binding site [chemical binding]; other site 400667008850 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400667008851 active site 400667008852 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 400667008853 putative active site [active] 400667008854 putative catalytic site [active] 400667008855 putative DNA binding site [nucleotide binding]; other site 400667008856 putative phosphate binding site [ion binding]; other site 400667008857 metal binding site A [ion binding]; metal-binding site 400667008858 putative AP binding site [nucleotide binding]; other site 400667008859 putative metal binding site B [ion binding]; other site 400667008860 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 400667008861 ArsC family; Region: ArsC; pfam03960 400667008862 putative catalytic residues [active] 400667008863 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 400667008864 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 400667008865 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 400667008866 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400667008867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400667008868 metal binding site [ion binding]; metal-binding site 400667008869 active site 400667008870 I-site; other site 400667008871 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 400667008872 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400667008873 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 400667008874 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 400667008875 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 400667008876 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 400667008877 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 400667008878 30S subunit binding site; other site 400667008879 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 400667008880 tetramer interface [polypeptide binding]; other site 400667008881 active site 400667008882 putative OHCU decarboxylase; Provisional; Region: PRK13798 400667008883 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 400667008884 active site 400667008885 homotetramer interface [polypeptide binding]; other site 400667008886 xanthine permease; Region: pbuX; TIGR03173 400667008887 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 400667008888 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400667008889 allantoicase; Provisional; Region: PRK13257 400667008890 Allantoicase repeat; Region: Allantoicase; pfam03561 400667008891 Allantoicase repeat; Region: Allantoicase; pfam03561 400667008892 ureidoglycolate hydrolase; Provisional; Region: PRK03606 400667008893 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 400667008894 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 400667008895 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 400667008896 ATP binding site [chemical binding]; other site 400667008897 Mg2+ binding site [ion binding]; other site 400667008898 G-X-G motif; other site 400667008899 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 400667008900 anchoring element; other site 400667008901 dimer interface [polypeptide binding]; other site 400667008902 ATP binding site [chemical binding]; other site 400667008903 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 400667008904 active site 400667008905 metal binding site [ion binding]; metal-binding site 400667008906 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 400667008907 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 400667008908 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667008909 PGAP1-like protein; Region: PGAP1; pfam07819 400667008910 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400667008911 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400667008912 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 400667008913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400667008914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 400667008915 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 400667008916 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 400667008917 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 400667008918 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 400667008919 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 400667008920 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 400667008921 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 400667008922 Protein of unknown function (DUF445); Region: DUF445; pfam04286 400667008923 methionine aminotransferase; Validated; Region: PRK09082 400667008924 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 400667008925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667008926 homodimer interface [polypeptide binding]; other site 400667008927 catalytic residue [active] 400667008928 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 400667008929 putative efflux protein, MATE family; Region: matE; TIGR00797 400667008930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400667008931 short chain dehydrogenase; Provisional; Region: PRK07832 400667008932 NAD(P) binding site [chemical binding]; other site 400667008933 active site 400667008934 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400667008935 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667008936 phosphorylation site [posttranslational modification] 400667008937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400667008938 active site 400667008939 dimerization interface [polypeptide binding]; other site 400667008940 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 400667008941 DNA binding site [nucleotide binding] 400667008942 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 400667008943 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 400667008944 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 400667008945 putative active site [active] 400667008946 heme pocket [chemical binding]; other site 400667008947 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 400667008948 dimer interface [polypeptide binding]; other site 400667008949 phosphorylation site [posttranslational modification] 400667008950 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 400667008951 ATP binding site [chemical binding]; other site 400667008952 Mg2+ binding site [ion binding]; other site 400667008953 G-X-G motif; other site 400667008954 Secretory lipase; Region: LIP; pfam03583 400667008955 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400667008956 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 400667008957 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 400667008958 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 400667008959 active site residue [active] 400667008960 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 400667008961 active site residue [active] 400667008962 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 400667008963 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 400667008964 active site 400667008965 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 400667008966 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 400667008967 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 400667008968 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 400667008969 heme binding pocket [chemical binding]; other site 400667008970 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 400667008971 dimerization interface [polypeptide binding]; other site 400667008972 putative tRNAtyr binding site [nucleotide binding]; other site 400667008973 putative active site [active] 400667008974 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 400667008975 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 400667008976 phosphoserine phosphatase SerB; Region: serB; TIGR00338 400667008977 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 400667008978 motif II; other site 400667008979 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 400667008980 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 400667008981 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 400667008982 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 400667008983 dimerization interface [polypeptide binding]; other site 400667008984 active site 400667008985 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 400667008986 homopentamer interface [polypeptide binding]; other site 400667008987 active site 400667008988 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 400667008989 thiamine monophosphate kinase; Provisional; Region: PRK05731 400667008990 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 400667008991 ATP binding site [chemical binding]; other site 400667008992 dimerization interface [polypeptide binding]; other site 400667008993 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 400667008994 tetramer interfaces [polypeptide binding]; other site 400667008995 binuclear metal-binding site [ion binding]; other site 400667008996 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 400667008997 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400667008998 putative trimer interface [polypeptide binding]; other site 400667008999 putative CoA binding site [chemical binding]; other site 400667009000 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 400667009001 active site 400667009002 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 400667009003 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 400667009004 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 400667009005 dimer interface [polypeptide binding]; other site 400667009006 active site 400667009007 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400667009008 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 400667009009 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 400667009010 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 400667009011 motif II; other site 400667009012 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 400667009013 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 400667009014 agmatinase; Region: agmatinase; TIGR01230 400667009015 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 400667009016 putative active site [active] 400667009017 putative metal binding site [ion binding]; other site 400667009018 imidazolonepropionase; Validated; Region: PRK09356 400667009019 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 400667009020 active site 400667009021 putative proline-specific permease; Provisional; Region: proY; PRK10580 400667009022 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 400667009023 tetramer interface [polypeptide binding]; other site 400667009024 active sites [active] 400667009025 urocanate hydratase; Provisional; Region: PRK05414 400667009026 urocanate hydratase; Provisional; Region: PRK05414 400667009027 HutD; Region: HutD; pfam05962 400667009028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400667009029 DNA-binding site [nucleotide binding]; DNA binding site 400667009030 UTRA domain; Region: UTRA; pfam07702 400667009031 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 400667009032 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 400667009033 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 400667009034 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 400667009035 Peptidase M15; Region: Peptidase_M15_3; cl01194 400667009036 aromatic amino acid transporter; Provisional; Region: PRK10238 400667009037 fumarylacetoacetase; Region: PLN02856 400667009038 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 400667009039 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400667009040 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 400667009041 dimer interface [polypeptide binding]; other site 400667009042 N-terminal domain interface [polypeptide binding]; other site 400667009043 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 400667009044 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 400667009045 active site 400667009046 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 400667009047 Bacterial transcriptional regulator; Region: IclR; pfam01614 400667009048 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 400667009049 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 400667009050 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 400667009051 active site 400667009052 Fe binding site [ion binding]; other site 400667009053 Protein of unknown function (DUF523); Region: DUF523; cl00733 400667009054 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 400667009055 bile acid transporter; Region: bass; TIGR00841 400667009056 Sodium Bile acid symporter family; Region: SBF; pfam01758 400667009057 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 400667009058 Isochorismatase family; Region: Isochorismatase; pfam00857 400667009059 metal binding site [ion binding]; metal-binding site 400667009060 catalytic triad [active] 400667009061 conserved cis-peptide bond; other site 400667009062 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 400667009063 dimer interface [polypeptide binding]; other site 400667009064 active site 400667009065 catalytic residue [active] 400667009066 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 400667009067 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 400667009068 active site 400667009069 substrate binding site [chemical binding]; other site 400667009070 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 400667009071 recombination factor protein RarA; Reviewed; Region: PRK13342 400667009072 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 400667009073 Walker A motif; other site 400667009074 ATP binding site [chemical binding]; other site 400667009075 Walker B motif; other site 400667009076 arginine finger; other site 400667009077 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 400667009078 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 400667009079 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 400667009080 hypothetical protein; Provisional; Region: PRK05170 400667009081 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 400667009082 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400667009083 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 400667009084 nucleotide binding site/active site [active] 400667009085 HIT family signature motif; other site 400667009086 catalytic residue [active] 400667009087 endonuclease III; Region: ENDO3c; smart00478 400667009088 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 400667009089 minor groove reading motif; other site 400667009090 helix-hairpin-helix signature motif; other site 400667009091 substrate binding pocket [chemical binding]; other site 400667009092 active site 400667009093 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 400667009094 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 400667009095 DNA binding and oxoG recognition site [nucleotide binding] 400667009096 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400667009097 Peptidase family M23; Region: Peptidase_M23; pfam01551 400667009098 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 400667009099 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 400667009100 Enoylreductase; Region: PKS_ER; smart00829 400667009101 putative substrate binding site [chemical binding]; other site 400667009102 catalytic Zn binding site [ion binding]; other site 400667009103 structural Zn binding site [ion binding]; other site 400667009104 dimer interface [polypeptide binding]; other site 400667009105 putative NAD(P) binding site [chemical binding]; other site 400667009106 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 400667009107 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 400667009108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400667009109 homodimer interface [polypeptide binding]; other site 400667009110 catalytic residue [active] 400667009111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667009112 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 400667009113 putative effector binding pocket; other site 400667009114 dimerization interface [polypeptide binding]; other site 400667009115 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 400667009116 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400667009117 active site 400667009118 catalytic tetrad [active] 400667009119 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400667009120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 400667009121 putative substrate translocation pore; other site 400667009122 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 400667009123 putative lipid binding site [chemical binding]; other site 400667009124 dihydrodipicolinate reductase; Provisional; Region: PRK00048 400667009125 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 400667009126 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 400667009127 chaperone protein DnaJ; Provisional; Region: PRK10767 400667009128 DnaJ domain; Region: DnaJ; pfam00226 400667009129 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 400667009130 substrate binding site [polypeptide binding]; other site 400667009131 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 400667009132 Zn binding sites [ion binding]; other site 400667009133 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 400667009134 dimer interface [polypeptide binding]; other site 400667009135 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 400667009136 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 400667009137 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 400667009138 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400667009139 HlyD family secretion protein; Region: HlyD_3; pfam13437 400667009140 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400667009141 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 400667009142 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 400667009143 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 400667009144 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 400667009145 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 400667009146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400667009147 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 400667009148 dimerization interface [polypeptide binding]; other site 400667009149 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400667009150 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 400667009151 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 400667009152 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 400667009153 putative active site [active] 400667009154 putative cosubstrate binding site; other site 400667009155 substrate binding site [chemical binding]; other site 400667009156 catalytic site [active] 400667009157 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 400667009158 substrate binding site [chemical binding]; other site 400667009159 16S rRNA methyltransferase B; Provisional; Region: PRK10901 400667009160 NusB family; Region: NusB; pfam01029 400667009161 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 400667009162 S-adenosylmethionine binding site [chemical binding]; other site 400667009163 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 400667009164 putative substrate binding site 2 [chemical binding]; other site 400667009165 putative substrate binding site 1 [chemical binding]; other site 400667009166 Na binding site 1 [ion binding]; other site 400667009167 Na2 binding site [ion binding]; other site 400667009168 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 400667009169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400667009170 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 400667009171 putative C-terminal domain interface [polypeptide binding]; other site 400667009172 putative GSH binding site (G-site) [chemical binding]; other site 400667009173 putative dimer interface [polypeptide binding]; other site 400667009174 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 400667009175 dimer interface [polypeptide binding]; other site 400667009176 N-terminal domain interface [polypeptide binding]; other site 400667009177 substrate binding pocket (H-site) [chemical binding]; other site