-- dump date 20120504_155453 -- class Genbank::misc_feature -- table misc_feature_note -- id note 205922000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 205922000002 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 205922000003 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 205922000004 Walker A motif; other site 205922000005 ATP binding site [chemical binding]; other site 205922000006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922000007 Walker B motif; other site 205922000008 arginine finger; other site 205922000009 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 205922000010 DnaA box-binding interface [nucleotide binding]; other site 205922000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 205922000012 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 205922000013 putative DNA binding surface [nucleotide binding]; other site 205922000014 dimer interface [polypeptide binding]; other site 205922000015 beta-clamp/clamp loader binding surface; other site 205922000016 beta-clamp/translesion DNA polymerase binding surface; other site 205922000017 recombination protein F; Reviewed; Region: recF; PRK00064 205922000018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922000019 Walker A/P-loop; other site 205922000020 ATP binding site [chemical binding]; other site 205922000021 Q-loop/lid; other site 205922000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922000023 ABC transporter signature motif; other site 205922000024 Walker B; other site 205922000025 D-loop; other site 205922000026 H-loop/switch region; other site 205922000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 205922000028 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922000029 Mg2+ binding site [ion binding]; other site 205922000030 G-X-G motif; other site 205922000031 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 205922000032 anchoring element; other site 205922000033 dimer interface [polypeptide binding]; other site 205922000034 ATP binding site [chemical binding]; other site 205922000035 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 205922000036 active site 205922000037 putative metal-binding site [ion binding]; other site 205922000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 205922000039 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922000040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922000041 active site 205922000042 phosphorylation site [posttranslational modification] 205922000043 intermolecular recognition site; other site 205922000044 dimerization interface [polypeptide binding]; other site 205922000045 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 205922000046 DNA binding site [nucleotide binding] 205922000047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 205922000048 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 205922000049 dimer interface [polypeptide binding]; other site 205922000050 phosphorylation site [posttranslational modification] 205922000051 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922000052 ATP binding site [chemical binding]; other site 205922000053 Mg2+ binding site [ion binding]; other site 205922000054 G-X-G motif; other site 205922000055 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205922000056 putative acyl-acceptor binding pocket; other site 205922000057 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 205922000058 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 205922000059 active site 205922000060 motif I; other site 205922000061 motif II; other site 205922000062 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 205922000063 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 205922000064 dimer interface [polypeptide binding]; other site 205922000065 motif 1; other site 205922000066 active site 205922000067 motif 2; other site 205922000068 motif 3; other site 205922000069 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 205922000070 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 205922000071 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922000072 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 205922000073 putative acyl-acceptor binding pocket; other site 205922000074 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 205922000075 TPR motif; other site 205922000076 TPR repeat; Region: TPR_11; pfam13414 205922000077 binding surface 205922000078 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 205922000079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922000080 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 205922000081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922000082 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 205922000083 16S rRNA methyltransferase B; Provisional; Region: PRK10901 205922000084 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 205922000085 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 205922000086 S-adenosylmethionine binding site [chemical binding]; other site 205922000087 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 205922000088 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 205922000089 putative active site [active] 205922000090 substrate binding site [chemical binding]; other site 205922000091 putative cosubstrate binding site; other site 205922000092 catalytic site [active] 205922000093 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 205922000094 substrate binding site [chemical binding]; other site 205922000095 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 205922000096 active site 205922000097 catalytic residues [active] 205922000098 metal binding site [ion binding]; metal-binding site 205922000099 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205922000100 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 205922000101 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 205922000102 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 205922000103 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 205922000104 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 205922000105 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 205922000106 NADP binding site [chemical binding]; other site 205922000107 dimer interface [polypeptide binding]; other site 205922000108 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 205922000109 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 205922000110 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 205922000111 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 205922000112 shikimate binding site; other site 205922000113 NAD(P) binding site [chemical binding]; other site 205922000114 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 205922000115 Sulfate transporter family; Region: Sulfate_transp; cl15842 205922000116 Sulfate transporter family; Region: Sulfate_transp; cl15842 205922000117 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 205922000118 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 205922000119 NMT1-like family; Region: NMT1_2; cl15260 205922000120 Sulfatase; Region: Sulfatase; cl10460 205922000121 choline-sulfatase; Region: chol_sulfatase; TIGR03417 205922000122 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 205922000123 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 205922000124 Helix-turn-helix domains; Region: HTH; cl00088 205922000125 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 205922000126 dimerization interface [polypeptide binding]; other site 205922000127 substrate binding pocket [chemical binding]; other site 205922000128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922000129 NADH(P)-binding; Region: NAD_binding_10; pfam13460 205922000130 NAD(P) binding site [chemical binding]; other site 205922000131 active site 205922000132 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 205922000133 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 205922000134 Citrate transporter; Region: CitMHS; pfam03600 205922000135 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 205922000136 transmembrane helices; other site 205922000137 Integral membrane protein TerC family; Region: TerC; cl10468 205922000138 DDE superfamily endonuclease; Region: DDE_4; cl15789 205922000139 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 205922000140 DDE superfamily endonuclease; Region: DDE_4; cl15789 205922000141 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 205922000142 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 205922000143 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 205922000144 PhoU domain; Region: PhoU; pfam01895 205922000145 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 205922000146 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 205922000147 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205922000148 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 205922000149 Permease; Region: Permease; cl00510 205922000150 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 205922000151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922000152 Walker A/P-loop; other site 205922000153 ATP binding site [chemical binding]; other site 205922000154 Q-loop/lid; other site 205922000155 ABC transporter signature motif; other site 205922000156 Walker B; other site 205922000157 D-loop; other site 205922000158 H-loop/switch region; other site 205922000159 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 205922000160 mce related protein; Region: MCE; pfam02470 205922000161 Protein of unknown function (DUF330); Region: DUF330; cl01135 205922000162 Nucleoside recognition; Region: Gate; cl00486 205922000163 Nucleoside recognition; Region: Gate; cl00486 205922000164 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922000165 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 205922000166 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 205922000167 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922000168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922000169 active site 205922000170 phosphorylation site [posttranslational modification] 205922000171 intermolecular recognition site; other site 205922000172 dimerization interface [polypeptide binding]; other site 205922000173 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 205922000174 Walker A motif; other site 205922000175 ATP binding site [chemical binding]; other site 205922000176 Walker B motif; other site 205922000177 arginine finger; other site 205922000178 Helix-turn-helix domains; Region: HTH; cl00088 205922000179 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922000180 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 205922000181 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 205922000182 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 205922000183 dimer interface [polypeptide binding]; other site 205922000184 phosphorylation site [posttranslational modification] 205922000185 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922000186 ATP binding site [chemical binding]; other site 205922000187 Mg2+ binding site [ion binding]; other site 205922000188 G-X-G motif; other site 205922000189 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 205922000190 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 205922000191 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 205922000192 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 205922000193 amidase catalytic site [active] 205922000194 Zn binding residues [ion binding]; other site 205922000195 substrate binding site [chemical binding]; other site 205922000196 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 205922000197 transport protein TonB; Provisional; Region: PRK10819 205922000198 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 205922000199 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922000200 metal binding site [ion binding]; metal-binding site 205922000201 active site 205922000202 I-site; other site 205922000203 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 205922000204 putative catalytic site [active] 205922000205 putative metal binding site [ion binding]; other site 205922000206 putative phosphate binding site [ion binding]; other site 205922000207 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 205922000208 putative catalytic site [active] 205922000209 putative phosphate binding site [ion binding]; other site 205922000210 putative metal binding site [ion binding]; other site 205922000211 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 205922000212 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 205922000213 catalytic residues [active] 205922000214 hinge region; other site 205922000215 alpha helical domain; other site 205922000216 Cytochrome c; Region: Cytochrom_C; cl11414 205922000217 Cytochrome c; Region: Cytochrom_C; cl11414 205922000218 Cytochrome c; Region: Cytochrom_C; cl11414 205922000219 Predicted GTPase [General function prediction only]; Region: COG0218 205922000220 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 205922000221 G1 box; other site 205922000222 GTP/Mg2+ binding site [chemical binding]; other site 205922000223 Switch I region; other site 205922000224 G2 box; other site 205922000225 G3 box; other site 205922000226 Switch II region; other site 205922000227 G4 box; other site 205922000228 G5 box; other site 205922000229 DNA polymerase I; Provisional; Region: PRK05755 205922000230 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 205922000231 active site 205922000232 metal binding site 1 [ion binding]; metal-binding site 205922000233 putative 5' ssDNA interaction site; other site 205922000234 metal binding site 3; metal-binding site 205922000235 metal binding site 2 [ion binding]; metal-binding site 205922000236 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 205922000237 putative DNA binding site [nucleotide binding]; other site 205922000238 putative metal binding site [ion binding]; other site 205922000239 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 205922000240 active site 205922000241 catalytic site [active] 205922000242 substrate binding site [chemical binding]; other site 205922000243 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 205922000244 active site 205922000245 DNA binding site [nucleotide binding] 205922000246 catalytic site [active] 205922000247 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 205922000248 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 205922000249 Phosphotransferase enzyme family; Region: APH; pfam01636 205922000250 putative active site [active] 205922000251 putative substrate binding site [chemical binding]; other site 205922000252 ATP binding site [chemical binding]; other site 205922000253 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 205922000254 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 205922000255 metal binding site [ion binding]; metal-binding site 205922000256 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 205922000257 metal binding site 2 [ion binding]; metal-binding site 205922000258 putative DNA binding helix; other site 205922000259 metal binding site 1 [ion binding]; metal-binding site 205922000260 dimer interface [polypeptide binding]; other site 205922000261 structural Zn2+ binding site [ion binding]; other site 205922000262 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 205922000263 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 205922000264 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 205922000265 dimer interface [polypeptide binding]; other site 205922000266 putative PBP binding regions; other site 205922000267 ABC-ATPase subunit interface; other site 205922000268 hydroperoxidase II; Provisional; Region: katE; PRK11249 205922000269 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 205922000270 tetramer interface [polypeptide binding]; other site 205922000271 heme binding pocket [chemical binding]; other site 205922000272 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 205922000273 domain interactions; other site 205922000274 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 205922000275 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 205922000276 Walker A/P-loop; other site 205922000277 ATP binding site [chemical binding]; other site 205922000278 Q-loop/lid; other site 205922000279 ABC transporter signature motif; other site 205922000280 Walker B; other site 205922000281 D-loop; other site 205922000282 H-loop/switch region; other site 205922000283 NIL domain; Region: NIL; cl09633 205922000284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000285 dimer interface [polypeptide binding]; other site 205922000286 conserved gate region; other site 205922000287 ABC-ATPase subunit interface; other site 205922000288 NMT1-like family; Region: NMT1_2; cl15260 205922000289 putative transposase OrfB; Reviewed; Region: PHA02517 205922000290 Integrase core domain; Region: rve; cl01316 205922000291 Integrase core domain; Region: rve_3; cl15866 205922000292 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 205922000293 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 205922000294 Cu(I) binding site [ion binding]; other site 205922000295 UbiA prenyltransferase family; Region: UbiA; cl00337 205922000296 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 205922000297 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 205922000298 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 205922000299 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 205922000300 Subunit III/VIIa interface [polypeptide binding]; other site 205922000301 Phospholipid binding site [chemical binding]; other site 205922000302 Subunit I/III interface [polypeptide binding]; other site 205922000303 Subunit III/VIb interface [polypeptide binding]; other site 205922000304 Subunit III/VIa interface; other site 205922000305 Subunit III/Vb interface [polypeptide binding]; other site 205922000306 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 205922000307 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 205922000308 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 205922000309 Subunit I/III interface [polypeptide binding]; other site 205922000310 D-pathway; other site 205922000311 Subunit I/VIIc interface [polypeptide binding]; other site 205922000312 Subunit I/IV interface [polypeptide binding]; other site 205922000313 Subunit I/II interface [polypeptide binding]; other site 205922000314 Low-spin heme (heme a) binding site [chemical binding]; other site 205922000315 Subunit I/VIIa interface [polypeptide binding]; other site 205922000316 Subunit I/VIa interface [polypeptide binding]; other site 205922000317 Dimer interface; other site 205922000318 Putative water exit pathway; other site 205922000319 Binuclear center (heme a3/CuB) [ion binding]; other site 205922000320 K-pathway; other site 205922000321 Subunit I/Vb interface [polypeptide binding]; other site 205922000322 Putative proton exit pathway; other site 205922000323 Subunit I/VIb interface; other site 205922000324 Subunit I/VIc interface [polypeptide binding]; other site 205922000325 Electron transfer pathway; other site 205922000326 Subunit I/VIIIb interface [polypeptide binding]; other site 205922000327 Subunit I/VIIb interface [polypeptide binding]; other site 205922000328 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 205922000329 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 205922000330 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922000331 Cytochrome c; Region: Cytochrom_C; cl11414 205922000332 Sulfate transporter family; Region: Sulfate_transp; cl15842 205922000333 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 205922000334 active site clefts [active] 205922000335 zinc binding site [ion binding]; other site 205922000336 dimer interface [polypeptide binding]; other site 205922000337 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 205922000338 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922000339 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 205922000340 Cytochrome c; Region: Cytochrom_C; cl11414 205922000341 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 205922000342 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922000343 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 205922000344 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 205922000345 active site 205922000346 catalytic residues [active] 205922000347 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 205922000348 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 205922000349 Zn binding site [ion binding]; other site 205922000350 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 205922000351 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 205922000352 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 205922000353 active site 205922000354 Zn binding site [ion binding]; other site 205922000355 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 205922000356 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 205922000357 trimer interface [polypeptide binding]; other site 205922000358 putative metal binding site [ion binding]; other site 205922000359 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 205922000360 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922000361 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 205922000362 motif II; other site 205922000363 Predicted aminopeptidase [General function prediction only]; Region: COG4324 205922000364 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 205922000365 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 205922000366 OsmC-like protein; Region: OsmC; cl00767 205922000367 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 205922000368 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 205922000369 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 205922000370 Dodecin; Region: Dodecin; cl01328 205922000371 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 205922000372 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922000373 Helix-turn-helix domains; Region: HTH; cl00088 205922000374 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 205922000375 dimerization interface [polypeptide binding]; other site 205922000376 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 205922000377 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 205922000378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922000379 catalytic residue [active] 205922000380 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 205922000381 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 205922000382 substrate binding site [chemical binding]; other site 205922000383 active site 205922000384 catalytic residues [active] 205922000385 heterodimer interface [polypeptide binding]; other site 205922000386 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 205922000387 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 205922000388 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 205922000389 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 205922000390 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 205922000391 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 205922000392 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 205922000393 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922000394 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 205922000395 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 205922000396 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 205922000397 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 205922000398 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 205922000399 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 205922000400 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922000401 Helix-turn-helix domains; Region: HTH; cl00088 205922000402 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 205922000403 dimerization interface [polypeptide binding]; other site 205922000404 substrate binding pocket [chemical binding]; other site 205922000405 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 205922000406 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922000407 FAD binding site [chemical binding]; other site 205922000408 substrate binding pocket [chemical binding]; other site 205922000409 catalytic base [active] 205922000410 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 205922000411 CoA-transferase family III; Region: CoA_transf_3; pfam02515 205922000412 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 205922000413 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922000414 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922000415 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922000416 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 205922000417 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 205922000418 N-terminal plug; other site 205922000419 ligand-binding site [chemical binding]; other site 205922000420 fec operon regulator FecR; Reviewed; Region: PRK09774 205922000421 FecR protein; Region: FecR; pfam04773 205922000422 RNA polymerase sigma factor; Provisional; Region: PRK12528 205922000423 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922000424 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922000425 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 205922000426 Cache domain; Region: Cache_1; pfam02743 205922000427 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 205922000428 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 205922000429 dimerization interface [polypeptide binding]; other site 205922000430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922000431 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922000432 dimer interface [polypeptide binding]; other site 205922000433 putative CheW interface [polypeptide binding]; other site 205922000434 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 205922000435 putative hydrophobic ligand binding site [chemical binding]; other site 205922000436 protein interface [polypeptide binding]; other site 205922000437 gate; other site 205922000438 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 205922000439 AMP-binding enzyme; Region: AMP-binding; cl15778 205922000440 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922000441 thioester reductase domain; Region: Thioester-redct; TIGR01746 205922000442 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 205922000443 putative NAD(P) binding site [chemical binding]; other site 205922000444 active site 205922000445 putative substrate binding site [chemical binding]; other site 205922000446 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 205922000447 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 205922000448 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922000449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922000450 DNA-binding site [nucleotide binding]; DNA binding site 205922000451 FCD domain; Region: FCD; cl11656 205922000452 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 205922000453 biofilm formation regulator HmsP; Provisional; Region: PRK11829 205922000454 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922000455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922000456 metal binding site [ion binding]; metal-binding site 205922000457 active site 205922000458 I-site; other site 205922000459 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 205922000460 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 205922000461 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 205922000462 Calx-beta domain; Region: Calx-beta; cl02522 205922000463 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 205922000464 metal ion-dependent adhesion site (MIDAS); other site 205922000465 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922000466 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 205922000467 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 205922000468 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 205922000469 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 205922000470 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922000471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922000472 Walker A/P-loop; other site 205922000473 ATP binding site [chemical binding]; other site 205922000474 Q-loop/lid; other site 205922000475 ABC transporter signature motif; other site 205922000476 Walker B; other site 205922000477 D-loop; other site 205922000478 H-loop/switch region; other site 205922000479 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 205922000480 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000481 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000482 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 205922000483 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 205922000484 active site 205922000485 iron coordination sites [ion binding]; other site 205922000486 substrate binding pocket [chemical binding]; other site 205922000487 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 205922000488 NMT1-like family; Region: NMT1_2; cl15260 205922000489 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 205922000490 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922000491 Walker A/P-loop; other site 205922000492 ATP binding site [chemical binding]; other site 205922000493 Q-loop/lid; other site 205922000494 ABC transporter signature motif; other site 205922000495 Walker B; other site 205922000496 D-loop; other site 205922000497 H-loop/switch region; other site 205922000498 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922000499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000500 dimer interface [polypeptide binding]; other site 205922000501 conserved gate region; other site 205922000502 putative PBP binding loops; other site 205922000503 ABC-ATPase subunit interface; other site 205922000504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922000505 Helix-turn-helix domains; Region: HTH; cl00088 205922000506 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 205922000507 putative substrate binding pocket [chemical binding]; other site 205922000508 putative dimerization interface [polypeptide binding]; other site 205922000509 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922000510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922000511 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 205922000512 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000513 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922000514 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 205922000515 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000516 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000517 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 205922000518 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000519 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000520 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 205922000521 active site 205922000522 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922000523 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 205922000524 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000525 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922000526 Lipase (class 3). 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_3; cd00519 205922000527 active site flap/lid [active] 205922000528 nucleophilic elbow; other site 205922000529 catalytic triad [active] 205922000530 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 205922000531 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922000532 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922000533 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922000534 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 205922000535 Phage Tail Collar Domain; Region: Collar; pfam07484 205922000536 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 205922000537 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 205922000538 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 205922000539 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 205922000540 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 205922000541 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 205922000542 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 205922000543 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 205922000544 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 205922000545 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 205922000546 ligand-binding site [chemical binding]; other site 205922000547 Cupin domain; Region: Cupin_2; cl09118 205922000548 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 205922000549 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 205922000550 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 205922000551 putative deacylase active site [active] 205922000552 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 205922000553 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922000554 Helix-turn-helix domains; Region: HTH; cl00088 205922000555 Fusaric acid resistance protein family; Region: FUSC; pfam04632 205922000556 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 205922000557 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 205922000558 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 205922000559 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000560 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000561 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922000562 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 205922000563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 205922000564 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 205922000565 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 205922000566 binding surface 205922000567 TPR motif; other site 205922000568 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 205922000569 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 205922000570 putative active site [active] 205922000571 putative metal binding site [ion binding]; other site 205922000572 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 205922000573 N-glycosyltransferase; Provisional; Region: PRK11204 205922000574 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 205922000575 DXD motif; other site 205922000576 PgaD-like protein; Region: PgaD; cl14676 205922000577 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 205922000578 [2Fe-2S] cluster binding site [ion binding]; other site 205922000579 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 205922000580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922000581 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 205922000582 substrate binding site [chemical binding]; other site 205922000583 von Willebrand factor; Region: vWF_A; pfam12450 205922000584 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 205922000585 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 205922000586 metal ion-dependent adhesion site (MIDAS); other site 205922000587 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 205922000588 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 205922000589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922000590 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 205922000591 DNA binding residues [nucleotide binding] 205922000592 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922000593 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 205922000594 tetramerization interface [polypeptide binding]; other site 205922000595 NAD(P) binding site [chemical binding]; other site 205922000596 catalytic residues [active] 205922000597 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 205922000598 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 205922000599 inhibitor-cofactor binding pocket; inhibition site 205922000600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922000601 catalytic residue [active] 205922000602 Response regulator receiver domain; Region: Response_reg; pfam00072 205922000603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922000604 active site 205922000605 phosphorylation site [posttranslational modification] 205922000606 intermolecular recognition site; other site 205922000607 dimerization interface [polypeptide binding]; other site 205922000608 HDOD domain; Region: HDOD; pfam08668 205922000609 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 205922000610 PAS fold; Region: PAS_3; pfam08447 205922000611 putative active site [active] 205922000612 heme pocket [chemical binding]; other site 205922000613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922000614 metal binding site [ion binding]; metal-binding site 205922000615 active site 205922000616 I-site; other site 205922000617 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 205922000618 Di-iron ligands [ion binding]; other site 205922000619 Transposase; Region: DDE_Tnp_ISL3; pfam01610 205922000620 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 205922000621 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 205922000622 PAS domain; Region: PAS_9; pfam13426 205922000623 putative active site [active] 205922000624 heme pocket [chemical binding]; other site 205922000625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922000626 metal binding site [ion binding]; metal-binding site 205922000627 active site 205922000628 I-site; other site 205922000629 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 205922000630 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 205922000631 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 205922000632 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 205922000633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000634 dimer interface [polypeptide binding]; other site 205922000635 conserved gate region; other site 205922000636 putative PBP binding loops; other site 205922000637 ABC-ATPase subunit interface; other site 205922000638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000639 dimer interface [polypeptide binding]; other site 205922000640 conserved gate region; other site 205922000641 putative PBP binding loops; other site 205922000642 ABC-ATPase subunit interface; other site 205922000643 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 205922000644 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 205922000645 Walker A/P-loop; other site 205922000646 ATP binding site [chemical binding]; other site 205922000647 Q-loop/lid; other site 205922000648 ABC transporter signature motif; other site 205922000649 Walker B; other site 205922000650 D-loop; other site 205922000651 H-loop/switch region; other site 205922000652 TOBE-like domain; Region: TOBE_3; pfam12857 205922000653 Protein of unknown function (DUF962); Region: DUF962; cl01879 205922000654 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 205922000655 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 205922000656 ligand binding site [chemical binding]; other site 205922000657 flexible hinge region; other site 205922000658 Helix-turn-helix domains; Region: HTH; cl00088 205922000659 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 205922000660 active site 205922000661 homotetramer interface [polypeptide binding]; other site 205922000662 Domain of unknown function (DUF336); Region: DUF336; cl01249 205922000663 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 205922000664 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922000665 active site 205922000666 phosphorylation site [posttranslational modification] 205922000667 intermolecular recognition site; other site 205922000668 dimerization interface [polypeptide binding]; other site 205922000669 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 205922000670 DNA binding site [nucleotide binding] 205922000671 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 205922000672 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 205922000673 dimer interface [polypeptide binding]; other site 205922000674 phosphorylation site [posttranslational modification] 205922000675 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922000676 ATP binding site [chemical binding]; other site 205922000677 Mg2+ binding site [ion binding]; other site 205922000678 G-X-G motif; other site 205922000679 HipA N-terminal domain; Region: Couple_hipA; cl11853 205922000680 HipA-like N-terminal domain; Region: HipA_N; pfam07805 205922000681 HipA-like C-terminal domain; Region: HipA_C; pfam07804 205922000682 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922000683 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922000684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922000685 Fatty acid desaturase; Region: FA_desaturase; pfam00487 205922000686 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 205922000687 Sulfatase; Region: Sulfatase; cl10460 205922000688 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 205922000689 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922000690 Walker A/P-loop; other site 205922000691 ATP binding site [chemical binding]; other site 205922000692 Q-loop/lid; other site 205922000693 ABC transporter signature motif; other site 205922000694 Walker B; other site 205922000695 D-loop; other site 205922000696 H-loop/switch region; other site 205922000697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922000698 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922000699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922000700 NMT1-like family; Region: NMT1_2; cl15260 205922000701 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922000702 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922000703 Helix-turn-helix domains; Region: HTH; cl00088 205922000704 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 205922000705 dimerization interface [polypeptide binding]; other site 205922000706 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 205922000707 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 205922000708 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 205922000709 Sulfatase; Region: Sulfatase; cl10460 205922000710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922000711 Helix-turn-helix domains; Region: HTH; cl00088 205922000712 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 205922000713 dimerization interface [polypeptide binding]; other site 205922000714 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922000715 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 205922000716 N-terminal plug; other site 205922000717 ligand-binding site [chemical binding]; other site 205922000718 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922000719 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922000720 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205922000721 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922000722 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 205922000723 Walker A motif; other site 205922000724 ATP binding site [chemical binding]; other site 205922000725 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 205922000726 Walker B motif; other site 205922000727 arginine finger; other site 205922000728 NMT1-like family; Region: NMT1_2; cl15260 205922000729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000730 dimer interface [polypeptide binding]; other site 205922000731 conserved gate region; other site 205922000732 putative PBP binding loops; other site 205922000733 ABC-ATPase subunit interface; other site 205922000734 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922000735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000736 dimer interface [polypeptide binding]; other site 205922000737 conserved gate region; other site 205922000738 putative PBP binding loops; other site 205922000739 ABC-ATPase subunit interface; other site 205922000740 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922000741 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922000742 Walker A/P-loop; other site 205922000743 ATP binding site [chemical binding]; other site 205922000744 Q-loop/lid; other site 205922000745 ABC transporter signature motif; other site 205922000746 Walker B; other site 205922000747 D-loop; other site 205922000748 H-loop/switch region; other site 205922000749 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 205922000750 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 205922000751 substrate binding pocket [chemical binding]; other site 205922000752 membrane-bound complex binding site; other site 205922000753 hinge residues; other site 205922000754 Predicted ATPase [General function prediction only]; Region: COG4637 205922000755 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922000756 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922000757 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000758 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922000759 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922000760 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 205922000761 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922000762 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 205922000763 S-adenosylmethionine binding site [chemical binding]; other site 205922000764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000765 dimer interface [polypeptide binding]; other site 205922000766 conserved gate region; other site 205922000767 ABC-ATPase subunit interface; other site 205922000768 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 205922000769 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 205922000770 Walker A/P-loop; other site 205922000771 ATP binding site [chemical binding]; other site 205922000772 Q-loop/lid; other site 205922000773 ABC transporter signature motif; other site 205922000774 Walker B; other site 205922000775 D-loop; other site 205922000776 H-loop/switch region; other site 205922000777 NIL domain; Region: NIL; cl09633 205922000778 NMT1-like family; Region: NMT1_2; cl15260 205922000779 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 205922000780 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 205922000781 active site 205922000782 non-prolyl cis peptide bond; other site 205922000783 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 205922000784 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 205922000785 Flavin binding site [chemical binding]; other site 205922000786 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 205922000787 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 205922000788 Flavin binding site [chemical binding]; other site 205922000789 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 205922000790 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922000791 Walker A/P-loop; other site 205922000792 ATP binding site [chemical binding]; other site 205922000793 Q-loop/lid; other site 205922000794 ABC transporter signature motif; other site 205922000795 Walker B; other site 205922000796 D-loop; other site 205922000797 H-loop/switch region; other site 205922000798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000799 dimer interface [polypeptide binding]; other site 205922000800 conserved gate region; other site 205922000801 putative PBP binding loops; other site 205922000802 ABC-ATPase subunit interface; other site 205922000803 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922000804 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 205922000805 substrate binding pocket [chemical binding]; other site 205922000806 membrane-bound complex binding site; other site 205922000807 hinge residues; other site 205922000808 D-cysteine desulfhydrase; Validated; Region: PRK03910 205922000809 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 205922000810 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922000811 catalytic residue [active] 205922000812 serine O-acetyltransferase; Region: cysE; TIGR01172 205922000813 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 205922000814 trimer interface [polypeptide binding]; other site 205922000815 active site 205922000816 substrate binding site [chemical binding]; other site 205922000817 CoA binding site [chemical binding]; other site 205922000818 BCCT family transporter; Region: BCCT; cl00569 205922000819 Transcriptional regulators [Transcription]; Region: PurR; COG1609 205922000820 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205922000821 DNA binding site [nucleotide binding] 205922000822 domain linker motif; other site 205922000823 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 205922000824 putative ligand binding site [chemical binding]; other site 205922000825 putative dimerization interface [polypeptide binding]; other site 205922000826 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922000827 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 205922000828 N-terminal plug; other site 205922000829 ligand-binding site [chemical binding]; other site 205922000830 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 205922000831 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 205922000832 active site 205922000833 non-prolyl cis peptide bond; other site 205922000834 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 205922000835 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 205922000836 active site 205922000837 catalytic tetrad [active] 205922000838 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 205922000839 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 205922000840 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922000841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922000842 dimer interface [polypeptide binding]; other site 205922000843 conserved gate region; other site 205922000844 putative PBP binding loops; other site 205922000845 ABC-ATPase subunit interface; other site 205922000846 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 205922000847 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922000848 Walker A/P-loop; other site 205922000849 ATP binding site [chemical binding]; other site 205922000850 Q-loop/lid; other site 205922000851 ABC transporter signature motif; other site 205922000852 Walker B; other site 205922000853 D-loop; other site 205922000854 H-loop/switch region; other site 205922000855 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922000856 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 205922000857 substrate binding pocket [chemical binding]; other site 205922000858 membrane-bound complex binding site; other site 205922000859 hinge residues; other site 205922000860 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 205922000861 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 205922000862 CoenzymeA binding site [chemical binding]; other site 205922000863 subunit interaction site [polypeptide binding]; other site 205922000864 PHB binding site; other site 205922000865 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 205922000866 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 205922000867 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 205922000868 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 205922000869 RNA binding site [nucleotide binding]; other site 205922000870 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922000871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922000872 active site 205922000873 phosphorylation site [posttranslational modification] 205922000874 intermolecular recognition site; other site 205922000875 dimerization interface [polypeptide binding]; other site 205922000876 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 205922000877 DNA binding site [nucleotide binding] 205922000878 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 205922000879 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922000880 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922000881 ATP binding site [chemical binding]; other site 205922000882 Mg2+ binding site [ion binding]; other site 205922000883 G-X-G motif; other site 205922000884 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 205922000885 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922000886 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 205922000887 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 205922000888 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 205922000889 RNA binding surface [nucleotide binding]; other site 205922000890 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 205922000891 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 205922000892 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 205922000893 dimerization interface [polypeptide binding]; other site 205922000894 domain crossover interface; other site 205922000895 redox-dependent activation switch; other site 205922000896 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 205922000897 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 205922000898 active site 205922000899 substrate-binding site [chemical binding]; other site 205922000900 metal-binding site [ion binding] 205922000901 ATP binding site [chemical binding]; other site 205922000902 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 205922000903 non-specific DNA binding site [nucleotide binding]; other site 205922000904 salt bridge; other site 205922000905 sequence-specific DNA binding site [nucleotide binding]; other site 205922000906 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 205922000907 ATP binding site [chemical binding]; other site 205922000908 putative Mg++ binding site [ion binding]; other site 205922000909 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 205922000910 nucleotide binding region [chemical binding]; other site 205922000911 ATP-binding site [chemical binding]; other site 205922000912 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 205922000913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922000914 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922000915 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922000916 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 205922000917 active site 205922000918 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 205922000919 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 205922000920 putative molybdopterin cofactor binding site [chemical binding]; other site 205922000921 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 205922000922 putative molybdopterin cofactor binding site; other site 205922000923 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 205922000924 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 205922000925 Helix-turn-helix domains; Region: HTH; cl00088 205922000926 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 205922000927 dimerization interface [polypeptide binding]; other site 205922000928 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 205922000929 BON domain; Region: BON; cl02771 205922000930 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 205922000931 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 205922000932 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 205922000933 motif II; other site 205922000934 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 205922000935 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 205922000936 dimer interface [polypeptide binding]; other site 205922000937 ADP-ribose binding site [chemical binding]; other site 205922000938 active site 205922000939 nudix motif; other site 205922000940 metal binding site [ion binding]; metal-binding site 205922000941 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 205922000942 active site 205922000943 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 205922000944 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922000945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922000946 active site 205922000947 phosphorylation site [posttranslational modification] 205922000948 intermolecular recognition site; other site 205922000949 dimerization interface [polypeptide binding]; other site 205922000950 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 205922000951 Walker A motif; other site 205922000952 ATP binding site [chemical binding]; other site 205922000953 Walker B motif; other site 205922000954 arginine finger; other site 205922000955 Helix-turn-helix domains; Region: HTH; cl00088 205922000956 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 205922000957 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 205922000958 dimer interface [polypeptide binding]; other site 205922000959 phosphorylation site [posttranslational modification] 205922000960 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922000961 ATP binding site [chemical binding]; other site 205922000962 G-X-G motif; other site 205922000963 Cupin domain; Region: Cupin_2; cl09118 205922000964 hypothetical protein; Provisional; Region: PRK06149 205922000965 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922000966 active site 205922000967 ATP binding site [chemical binding]; other site 205922000968 substrate binding site [chemical binding]; other site 205922000969 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 205922000970 inhibitor-cofactor binding pocket; inhibition site 205922000971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922000972 catalytic residue [active] 205922000973 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 205922000974 agmatine deiminase; Region: agmatine_aguA; TIGR03380 205922000975 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922000976 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 205922000977 N-terminal plug; other site 205922000978 ligand-binding site [chemical binding]; other site 205922000979 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 205922000980 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 205922000981 catalytic residues [active] 205922000982 outer membrane porin, OprD family; Region: OprD; pfam03573 205922000983 Biofilm formation and stress response factor; Region: BsmA; cl01794 205922000984 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 205922000985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922000986 Coenzyme A binding pocket [chemical binding]; other site 205922000987 AzlC protein; Region: AzlC; cl00570 205922000988 Helix-turn-helix domains; Region: HTH; cl00088 205922000989 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 205922000990 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 205922000991 active site 1 [active] 205922000992 dimer interface [polypeptide binding]; other site 205922000993 hexamer interface [polypeptide binding]; other site 205922000994 active site 2 [active] 205922000995 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 205922000996 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 205922000997 catalytic residues [active] 205922000998 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922000999 classical (c) SDRs; Region: SDR_c; cd05233 205922001000 NAD(P) binding site [chemical binding]; other site 205922001001 active site 205922001002 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 205922001003 YcfA-like protein; Region: YcfA; cl00752 205922001004 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 205922001005 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 205922001006 DNA-binding interface [nucleotide binding]; DNA binding site 205922001007 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922001008 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922001009 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922001010 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922001011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922001012 dimer interface [polypeptide binding]; other site 205922001013 conserved gate region; other site 205922001014 putative PBP binding loops; other site 205922001015 ABC-ATPase subunit interface; other site 205922001016 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922001017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922001018 dimer interface [polypeptide binding]; other site 205922001019 conserved gate region; other site 205922001020 putative PBP binding loops; other site 205922001021 ABC-ATPase subunit interface; other site 205922001022 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922001023 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 205922001024 substrate binding pocket [chemical binding]; other site 205922001025 membrane-bound complex binding site; other site 205922001026 hinge residues; other site 205922001027 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 205922001028 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922001029 Walker A/P-loop; other site 205922001030 ATP binding site [chemical binding]; other site 205922001031 Q-loop/lid; other site 205922001032 ABC transporter signature motif; other site 205922001033 Walker B; other site 205922001034 D-loop; other site 205922001035 H-loop/switch region; other site 205922001036 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 205922001037 Spore germination protein; Region: Spore_permease; cl15802 205922001038 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 205922001039 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922001040 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 205922001041 adenine DNA glycosylase; Provisional; Region: PRK10880 205922001042 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 205922001043 minor groove reading motif; other site 205922001044 helix-hairpin-helix signature motif; other site 205922001045 substrate binding pocket [chemical binding]; other site 205922001046 active site 205922001047 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 205922001048 DNA binding and oxoG recognition site [nucleotide binding] 205922001049 AsmA family; Region: AsmA; pfam05170 205922001050 AsmA-like C-terminal region; Region: AsmA_2; cl15864 205922001051 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 205922001052 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922001053 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 205922001054 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 205922001055 putative active site pocket [active] 205922001056 4-fold oligomerization interface [polypeptide binding]; other site 205922001057 metal binding residues [ion binding]; metal-binding site 205922001058 3-fold/trimer interface [polypeptide binding]; other site 205922001059 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 205922001060 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 205922001061 putative active site [active] 205922001062 oxyanion strand; other site 205922001063 catalytic triad [active] 205922001064 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 205922001065 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 205922001066 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 205922001067 catalytic residues [active] 205922001068 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 205922001069 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 205922001070 substrate binding site [chemical binding]; other site 205922001071 glutamase interaction surface [polypeptide binding]; other site 205922001072 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 205922001073 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922001074 substrate binding pocket [chemical binding]; other site 205922001075 membrane-bound complex binding site; other site 205922001076 hinge residues; other site 205922001077 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 205922001078 Insecticidal Crystal Toxin, P42; Region: Toxin_10; pfam05431 205922001079 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 205922001080 NodB motif; other site 205922001081 putative active site [active] 205922001082 putative catalytic site [active] 205922001083 Zn binding site [ion binding]; other site 205922001084 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 205922001085 C-terminal peptidase (prc); Region: prc; TIGR00225 205922001086 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 205922001087 protein binding site [polypeptide binding]; other site 205922001088 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 205922001089 Catalytic dyad [active] 205922001090 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 205922001091 Sulfatase; Region: Sulfatase; cl10460 205922001092 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 205922001093 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 205922001094 active site residue [active] 205922001095 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 205922001096 GSH binding site [chemical binding]; other site 205922001097 catalytic residues [active] 205922001098 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 205922001099 SecA binding site; other site 205922001100 Preprotein binding site; other site 205922001101 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 205922001102 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 205922001103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922001104 active site 205922001105 phosphorylation site [posttranslational modification] 205922001106 intermolecular recognition site; other site 205922001107 dimerization interface [polypeptide binding]; other site 205922001108 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 205922001109 Walker A motif; other site 205922001110 ATP binding site [chemical binding]; other site 205922001111 Walker B motif; other site 205922001112 arginine finger; other site 205922001113 Helix-turn-helix domains; Region: HTH; cl00088 205922001114 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 205922001115 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 205922001116 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 205922001117 dimer interface [polypeptide binding]; other site 205922001118 phosphorylation site [posttranslational modification] 205922001119 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922001120 ATP binding site [chemical binding]; other site 205922001121 Mg2+ binding site [ion binding]; other site 205922001122 G-X-G motif; other site 205922001123 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 205922001124 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 205922001125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 205922001126 glutamine synthetase; Provisional; Region: glnA; PRK09469 205922001127 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 205922001128 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922001129 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 205922001130 THUMP domain; Region: THUMP; cl12076 205922001131 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 205922001132 Ligand Binding Site [chemical binding]; other site 205922001133 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 205922001134 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 205922001135 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 205922001136 G1 box; other site 205922001137 putative GEF interaction site [polypeptide binding]; other site 205922001138 GTP/Mg2+ binding site [chemical binding]; other site 205922001139 Switch I region; other site 205922001140 G2 box; other site 205922001141 G3 box; other site 205922001142 Switch II region; other site 205922001143 G4 box; other site 205922001144 G5 box; other site 205922001145 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 205922001146 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 205922001147 Flagellin N-methylase; Region: FliB; cl00497 205922001148 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 205922001149 homodimer interface [polypeptide binding]; other site 205922001150 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 205922001151 active site pocket [active] 205922001152 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 205922001153 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 205922001154 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 205922001155 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 205922001156 fructose-1,6-bisphosphatase family protein; Region: PLN02628 205922001157 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 205922001158 AMP binding site [chemical binding]; other site 205922001159 metal binding site [ion binding]; metal-binding site 205922001160 active site 205922001161 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 205922001162 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 205922001163 Cache domain; Region: Cache_1; pfam02743 205922001164 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 205922001165 dimerization interface [polypeptide binding]; other site 205922001166 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922001167 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922001168 dimer interface [polypeptide binding]; other site 205922001169 putative CheW interface [polypeptide binding]; other site 205922001170 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 205922001171 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 205922001172 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 205922001173 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 205922001174 active site 205922001175 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 205922001176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922001177 DNA-binding site [nucleotide binding]; DNA binding site 205922001178 UTRA domain; Region: UTRA; cl01230 205922001179 HutD; Region: HutD; cl01532 205922001180 urocanate hydratase; Provisional; Region: PRK05414 205922001181 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922001182 Na binding site [ion binding]; other site 205922001183 NMT1-like family; Region: NMT1_2; cl15260 205922001184 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 205922001185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922001186 dimer interface [polypeptide binding]; other site 205922001187 conserved gate region; other site 205922001188 putative PBP binding loops; other site 205922001189 ABC-ATPase subunit interface; other site 205922001190 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922001191 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 205922001192 Walker A/P-loop; other site 205922001193 ATP binding site [chemical binding]; other site 205922001194 Q-loop/lid; other site 205922001195 ABC transporter signature motif; other site 205922001196 Walker B; other site 205922001197 D-loop; other site 205922001198 H-loop/switch region; other site 205922001199 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 205922001200 active sites [active] 205922001201 tetramer interface [polypeptide binding]; other site 205922001202 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 205922001203 active sites [active] 205922001204 tetramer interface [polypeptide binding]; other site 205922001205 imidazolonepropionase; Validated; Region: PRK09356 205922001206 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 205922001207 active site 205922001208 N-formylglutamate amidohydrolase; Region: FGase; cl01522 205922001209 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 205922001210 NMT1-like family; Region: NMT1_2; cl15260 205922001211 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 205922001212 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 205922001213 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922001214 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922001215 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 205922001216 putative active site [active] 205922001217 dimerization interface [polypeptide binding]; other site 205922001218 putative tRNAtyr binding site [nucleotide binding]; other site 205922001219 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 205922001220 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 205922001221 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 205922001222 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 205922001223 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 205922001224 Ligand binding site; other site 205922001225 DXD motif; other site 205922001226 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 205922001227 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922001228 substrate binding pocket [chemical binding]; other site 205922001229 membrane-bound complex binding site; other site 205922001230 hinge residues; other site 205922001231 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922001232 dimer interface [polypeptide binding]; other site 205922001233 conserved gate region; other site 205922001234 putative PBP binding loops; other site 205922001235 ABC-ATPase subunit interface; other site 205922001236 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922001237 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922001238 Walker A/P-loop; other site 205922001239 ATP binding site [chemical binding]; other site 205922001240 Q-loop/lid; other site 205922001241 ABC transporter signature motif; other site 205922001242 Walker B; other site 205922001243 D-loop; other site 205922001244 H-loop/switch region; other site 205922001245 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 205922001246 dimerization interface [polypeptide binding]; other site 205922001247 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922001248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922001249 dimer interface [polypeptide binding]; other site 205922001250 putative CheW interface [polypeptide binding]; other site 205922001251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 205922001252 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 205922001253 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 205922001254 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 205922001255 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 205922001256 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 205922001257 metal binding site [ion binding]; metal-binding site 205922001258 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 205922001259 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922001260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 205922001261 SCP-2 sterol transfer family; Region: SCP2; cl01225 205922001262 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 205922001263 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 205922001264 S-adenosylmethionine binding site [chemical binding]; other site 205922001265 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922001266 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 205922001267 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 205922001268 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 205922001269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922001270 Helix-turn-helix domains; Region: HTH; cl00088 205922001271 Bacterial transcriptional repressor; Region: TetR; pfam13972 205922001272 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 205922001273 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 205922001274 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 205922001275 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922001276 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 205922001277 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 205922001278 Protein of unknown function (DUF971); Region: DUF971; cl01414 205922001279 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 205922001280 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 205922001281 Walker A motif; other site 205922001282 ATP binding site [chemical binding]; other site 205922001283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922001284 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 205922001285 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 205922001286 active site 205922001287 HslU subunit interaction site [polypeptide binding]; other site 205922001288 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 205922001289 Sporulation related domain; Region: SPOR; cl10051 205922001290 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 205922001291 arginine-tRNA ligase; Region: PLN02286 205922001292 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 205922001293 active site 205922001294 HIGH motif; other site 205922001295 KMSK motif region; other site 205922001296 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 205922001297 tRNA binding surface [nucleotide binding]; other site 205922001298 anticodon binding site; other site 205922001299 primosome assembly protein PriA; Validated; Region: PRK05580 205922001300 primosome assembly protein PriA; Validated; Region: PRK05580 205922001301 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 205922001302 ATP binding site [chemical binding]; other site 205922001303 putative Mg++ binding site [ion binding]; other site 205922001304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922001305 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 205922001306 Staphylococcal nuclease homologues; Region: SNc; smart00318 205922001307 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 205922001308 Catalytic site; other site 205922001309 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 205922001310 Malic enzyme, N-terminal domain; Region: malic; pfam00390 205922001311 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 205922001312 putative NAD(P) binding site [chemical binding]; other site 205922001313 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 205922001314 Transglycosylase; Region: Transgly; cl07896 205922001315 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922001316 Competence protein A; Region: Competence_A; pfam11104 205922001317 Cell division protein FtsA; Region: FtsA; cl11496 205922001318 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 205922001319 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 205922001320 Pilus assembly protein, PilO; Region: PilO; cl01234 205922001321 Pilus assembly protein, PilP; Region: PilP; pfam04351 205922001322 AMIN domain; Region: AMIN; pfam11741 205922001323 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 205922001324 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922001325 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205922001326 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 205922001327 shikimate kinase; Reviewed; Region: aroK; PRK00131 205922001328 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 205922001329 ADP binding site [chemical binding]; other site 205922001330 magnesium binding site [ion binding]; other site 205922001331 putative shikimate binding site; other site 205922001332 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 205922001333 active site 205922001334 dimer interface [polypeptide binding]; other site 205922001335 metal binding site [ion binding]; metal-binding site 205922001336 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 205922001337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922001338 Sporulation related domain; Region: SPOR; cl10051 205922001339 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 205922001340 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 205922001341 active site 205922001342 dimer interface [polypeptide binding]; other site 205922001343 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 205922001344 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 205922001345 active site 205922001346 FMN binding site [chemical binding]; other site 205922001347 substrate binding site [chemical binding]; other site 205922001348 3Fe-4S cluster binding site [ion binding]; other site 205922001349 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 205922001350 domain interface; other site 205922001351 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 205922001352 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 205922001353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922001354 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 205922001355 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 205922001356 substrate binding site [chemical binding]; other site 205922001357 active site 205922001358 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 205922001359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922001360 putative substrate translocation pore; other site 205922001361 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 205922001362 Helix-turn-helix domains; Region: HTH; cl00088 205922001363 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 205922001364 dimerization interface [polypeptide binding]; other site 205922001365 substrate binding pocket [chemical binding]; other site 205922001366 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 205922001367 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922001368 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 205922001369 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 205922001370 dimer interface [polypeptide binding]; other site 205922001371 active site 205922001372 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922001373 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 205922001374 NAD(P) binding site [chemical binding]; other site 205922001375 homotetramer interface [polypeptide binding]; other site 205922001376 homodimer interface [polypeptide binding]; other site 205922001377 active site 205922001378 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 205922001379 putative active site 1 [active] 205922001380 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 205922001381 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 205922001382 dimer interface [polypeptide binding]; other site 205922001383 active site 205922001384 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 205922001385 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 205922001386 S-adenosylmethionine binding site [chemical binding]; other site 205922001387 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 205922001388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922001389 Predicted exporter [General function prediction only]; Region: COG4258 205922001390 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 205922001391 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 205922001392 active site 205922001393 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 205922001394 active sites [active] 205922001395 tetramer interface [polypeptide binding]; other site 205922001396 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 205922001397 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 205922001398 putative acyl-acceptor binding pocket; other site 205922001399 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 205922001400 Ligand binding site; other site 205922001401 Putative Catalytic site; other site 205922001402 DXD motif; other site 205922001403 AMP-binding enzyme; Region: AMP-binding; cl15778 205922001404 peptide synthase; Provisional; Region: PRK12467 205922001405 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 205922001406 active site 2 [active] 205922001407 dimer interface [polypeptide binding]; other site 205922001408 active site 1 [active] 205922001409 Predicted membrane protein [Function unknown]; Region: COG4648 205922001410 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922001411 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922001412 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205922001413 putative acyl-acceptor binding pocket; other site 205922001414 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 205922001415 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205922001416 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 205922001417 P loop; other site 205922001418 Nucleotide binding site [chemical binding]; other site 205922001419 DTAP/Switch II; other site 205922001420 Switch I; other site 205922001421 thioredoxin 2; Provisional; Region: PRK10996 205922001422 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 205922001423 catalytic residues [active] 205922001424 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 205922001425 hypothetical protein; Provisional; Region: PRK11281 205922001426 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 205922001427 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922001428 potassium/proton antiporter; Reviewed; Region: PRK05326 205922001429 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922001430 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 205922001431 Transporter associated domain; Region: CorC_HlyC; cl08393 205922001432 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922001433 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 205922001434 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 205922001435 dimerization interface [polypeptide binding]; other site 205922001436 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922001437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922001438 dimer interface [polypeptide binding]; other site 205922001439 putative CheW interface [polypeptide binding]; other site 205922001440 Cell division protein ZapA; Region: ZapA; cl01146 205922001441 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 205922001442 dimerization interface [polypeptide binding]; other site 205922001443 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922001444 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922001445 dimer interface [polypeptide binding]; other site 205922001446 putative CheW interface [polypeptide binding]; other site 205922001447 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 205922001448 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 205922001449 Acyl-CoA dehydrogenase, middle domain; Region: Acyl-CoA_dh_M; pfam02770 205922001450 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922001451 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 205922001452 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 205922001453 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 205922001454 Proline dehydrogenase; Region: Pro_dh; cl03282 205922001455 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 205922001456 Glutamate binding site [chemical binding]; other site 205922001457 NAD binding site [chemical binding]; other site 205922001458 catalytic residues [active] 205922001459 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 205922001460 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 205922001461 Na binding site [ion binding]; other site 205922001462 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922001463 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922001464 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922001465 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 205922001466 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 205922001467 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 205922001468 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 205922001469 GAF domain; Region: GAF; cl15785 205922001470 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 205922001471 PAS domain; Region: PAS_9; pfam13426 205922001472 putative active site [active] 205922001473 heme pocket [chemical binding]; other site 205922001474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922001475 metal binding site [ion binding]; metal-binding site 205922001476 active site 205922001477 I-site; other site 205922001478 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 205922001479 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 205922001480 putative active site [active] 205922001481 putative metal binding site [ion binding]; other site 205922001482 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 205922001483 E3 interaction surface; other site 205922001484 lipoyl attachment site [posttranslational modification]; other site 205922001485 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 205922001486 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 205922001487 E3 interaction surface; other site 205922001488 lipoyl attachment site [posttranslational modification]; other site 205922001489 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 205922001490 E3 interaction surface; other site 205922001491 lipoyl attachment site [posttranslational modification]; other site 205922001492 e3 binding domain; Region: E3_binding; pfam02817 205922001493 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 205922001494 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 205922001495 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 205922001496 dimer interface [polypeptide binding]; other site 205922001497 TPP-binding site [chemical binding]; other site 205922001498 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 205922001499 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205922001500 metal binding triad; other site 205922001501 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 205922001502 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205922001503 metal binding triad; other site 205922001504 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 205922001505 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 205922001506 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 205922001507 putative active site [active] 205922001508 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 205922001509 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 205922001510 putative active site [active] 205922001511 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922001512 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 205922001513 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922001514 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922001515 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922001516 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 205922001517 active site 205922001518 ATP binding site [chemical binding]; other site 205922001519 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922001520 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 205922001521 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 205922001522 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 205922001523 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 205922001524 putative ADP-binding pocket [chemical binding]; other site 205922001525 Mig-14; Region: Mig-14; pfam07395 205922001526 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922001527 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 205922001528 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 205922001529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922001530 putative ADP-binding pocket [chemical binding]; other site 205922001531 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 205922001532 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 205922001533 active site 205922001534 OpgC protein; Region: OpgC_C; cl00792 205922001535 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922001536 O-Antigen ligase; Region: Wzy_C; cl04850 205922001537 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 205922001538 active site 205922001539 substrate binding site [chemical binding]; other site 205922001540 ATP binding site [chemical binding]; other site 205922001541 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 205922001542 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922001543 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 205922001544 Walker A/P-loop; other site 205922001545 ATP binding site [chemical binding]; other site 205922001546 Q-loop/lid; other site 205922001547 ABC transporter signature motif; other site 205922001548 Walker B; other site 205922001549 D-loop; other site 205922001550 H-loop/switch region; other site 205922001551 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 205922001552 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 205922001553 ligand-binding site [chemical binding]; other site 205922001554 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 205922001555 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 205922001556 putative ribose interaction site [chemical binding]; other site 205922001557 putative ADP binding site [chemical binding]; other site 205922001558 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205922001559 active site 205922001560 nucleotide binding site [chemical binding]; other site 205922001561 HIGH motif; other site 205922001562 KMSKS motif; other site 205922001563 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 205922001564 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 205922001565 active site 205922001566 catalytic tetrad [active] 205922001567 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 205922001568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922001569 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 205922001570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922001571 Helix-turn-helix domains; Region: HTH; cl00088 205922001572 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 205922001573 dimerization interface [polypeptide binding]; other site 205922001574 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 205922001575 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 205922001576 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 205922001577 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 205922001578 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 205922001579 ThiC-associated domain; Region: ThiC-associated; pfam13667 205922001580 ThiC family; Region: ThiC; cl08031 205922001581 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922001582 Na binding site [ion binding]; other site 205922001583 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 205922001584 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 205922001585 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 205922001586 dimer interface [polypeptide binding]; other site 205922001587 ADP-ribose binding site [chemical binding]; other site 205922001588 active site 205922001589 nudix motif; other site 205922001590 metal binding site [ion binding]; metal-binding site 205922001591 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 205922001592 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 205922001593 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 205922001594 active site 205922001595 metal binding site [ion binding]; metal-binding site 205922001596 hexamer interface [polypeptide binding]; other site 205922001597 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 205922001598 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 205922001599 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922001600 ATP binding site [chemical binding]; other site 205922001601 Mg2+ binding site [ion binding]; other site 205922001602 G-X-G motif; other site 205922001603 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 205922001604 anchoring element; other site 205922001605 dimer interface [polypeptide binding]; other site 205922001606 ATP binding site [chemical binding]; other site 205922001607 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 205922001608 active site 205922001609 metal binding site [ion binding]; metal-binding site 205922001610 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 205922001611 SdiA-regulated; Region: SdiA-regulated; cd09971 205922001612 putative active site [active] 205922001613 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 205922001614 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 205922001615 catalytic motif [active] 205922001616 Catalytic residue [active] 205922001617 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 205922001618 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 205922001619 CAP-like domain; other site 205922001620 active site 205922001621 primary dimer interface [polypeptide binding]; other site 205922001622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 205922001623 Protein of unknown function (DUF330); Region: DUF330; cl01135 205922001624 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 205922001625 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 205922001626 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 205922001627 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 205922001628 phosphoserine phosphatase SerB; Region: serB; TIGR00338 205922001629 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 205922001630 motif II; other site 205922001631 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 205922001632 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 205922001633 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 205922001634 active site residue [active] 205922001635 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 205922001636 active site residue [active] 205922001637 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 205922001638 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922001639 flagellar motor protein MotB; Validated; Region: motB; PRK09041 205922001640 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 205922001641 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922001642 ligand binding site [chemical binding]; other site 205922001643 GTPase RsgA; Reviewed; Region: PRK12288 205922001644 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 205922001645 RNA binding site [nucleotide binding]; other site 205922001646 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 205922001647 GTPase/Zn-binding domain interface [polypeptide binding]; other site 205922001648 GTP/Mg2+ binding site [chemical binding]; other site 205922001649 G4 box; other site 205922001650 G5 box; other site 205922001651 G1 box; other site 205922001652 Switch I region; other site 205922001653 G2 box; other site 205922001654 G3 box; other site 205922001655 Switch II region; other site 205922001656 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 205922001657 catalytic site [active] 205922001658 putative active site [active] 205922001659 putative substrate binding site [chemical binding]; other site 205922001660 dimer interface [polypeptide binding]; other site 205922001661 Predicted membrane protein [Function unknown]; Region: COG2860 205922001662 UPF0126 domain; Region: UPF0126; pfam03458 205922001663 UPF0126 domain; Region: UPF0126; pfam03458 205922001664 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 205922001665 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 205922001666 putative carbohydrate kinase; Provisional; Region: PRK10565 205922001667 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 205922001668 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 205922001669 putative substrate binding site [chemical binding]; other site 205922001670 putative ATP binding site [chemical binding]; other site 205922001671 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 205922001672 AMIN domain; Region: AMIN; pfam11741 205922001673 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 205922001674 active site 205922001675 metal binding site [ion binding]; metal-binding site 205922001676 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205922001677 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 205922001678 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922001679 ATP binding site [chemical binding]; other site 205922001680 Mg2+ binding site [ion binding]; other site 205922001681 G-X-G motif; other site 205922001682 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 205922001683 ATP binding site [chemical binding]; other site 205922001684 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 205922001685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922001686 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 205922001687 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 205922001688 Sm1 motif; other site 205922001689 intra - hexamer interaction site; other site 205922001690 inter - hexamer interaction site [polypeptide binding]; other site 205922001691 nucleotide binding pocket [chemical binding]; other site 205922001692 Sm2 motif; other site 205922001693 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 205922001694 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 205922001695 HflX GTPase family; Region: HflX; cd01878 205922001696 G1 box; other site 205922001697 GTP/Mg2+ binding site [chemical binding]; other site 205922001698 Switch I region; other site 205922001699 G2 box; other site 205922001700 G3 box; other site 205922001701 Switch II region; other site 205922001702 G4 box; other site 205922001703 G5 box; other site 205922001704 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 205922001705 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 205922001706 HflK protein; Region: hflK; TIGR01933 205922001707 FtsH protease regulator HflC; Provisional; Region: PRK11029 205922001708 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 205922001709 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 205922001710 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 205922001711 dimer interface [polypeptide binding]; other site 205922001712 motif 1; other site 205922001713 active site 205922001714 motif 2; other site 205922001715 motif 3; other site 205922001716 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 205922001717 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 205922001718 GDP-binding site [chemical binding]; other site 205922001719 ACT binding site; other site 205922001720 IMP binding site; other site 205922001721 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 205922001722 dimerization interface [polypeptide binding]; other site 205922001723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922001724 dimer interface [polypeptide binding]; other site 205922001725 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 205922001726 putative CheW interface [polypeptide binding]; other site 205922001727 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 205922001728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922001729 dimer interface [polypeptide binding]; other site 205922001730 conserved gate region; other site 205922001731 putative PBP binding loops; other site 205922001732 ABC-ATPase subunit interface; other site 205922001733 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922001734 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 205922001735 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 205922001736 ribonuclease R; Region: RNase_R; TIGR02063 205922001737 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 205922001738 RNB domain; Region: RNB; pfam00773 205922001739 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 205922001740 RNA binding site [nucleotide binding]; other site 205922001741 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 205922001742 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 205922001743 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 205922001744 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 205922001745 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 205922001746 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 205922001747 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 205922001748 replicative DNA helicase; Provisional; Region: PRK05748 205922001749 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 205922001750 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 205922001751 Walker A motif; other site 205922001752 ATP binding site [chemical binding]; other site 205922001753 Walker B motif; other site 205922001754 DNA binding loops [nucleotide binding] 205922001755 Vta1 like; Region: DUF605; pfam04652 205922001756 hypothetical protein; Provisional; Region: PRK01254 205922001757 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 205922001758 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 205922001759 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 205922001760 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 205922001761 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 205922001762 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 205922001763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 205922001764 Uncharacterized conserved protein [Function unknown]; Region: COG2308 205922001765 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 205922001766 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 205922001767 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 205922001768 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 205922001769 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 205922001770 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922001771 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 205922001772 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 205922001773 homodimer interface [polypeptide binding]; other site 205922001774 NAD binding pocket [chemical binding]; other site 205922001775 ATP binding pocket [chemical binding]; other site 205922001776 Mg binding site [ion binding]; other site 205922001777 active-site loop [active] 205922001778 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 205922001779 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 205922001780 active site 205922001781 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922001782 Helix-turn-helix domains; Region: HTH; cl00088 205922001783 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 205922001784 dimerization interface [polypeptide binding]; other site 205922001785 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922001786 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 205922001787 tetrameric interface [polypeptide binding]; other site 205922001788 NAD binding site [chemical binding]; other site 205922001789 catalytic residues [active] 205922001790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922001791 FAD dependent oxidoreductase; Region: DAO; pfam01266 205922001792 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 205922001793 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 205922001794 dimerization interface [polypeptide binding]; other site 205922001795 ligand binding site [chemical binding]; other site 205922001796 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 205922001797 TM-ABC transporter signature motif; other site 205922001798 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 205922001799 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 205922001800 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 205922001801 TM-ABC transporter signature motif; other site 205922001802 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 205922001803 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 205922001804 Walker A/P-loop; other site 205922001805 ATP binding site [chemical binding]; other site 205922001806 Q-loop/lid; other site 205922001807 ABC transporter signature motif; other site 205922001808 Walker B; other site 205922001809 D-loop; other site 205922001810 H-loop/switch region; other site 205922001811 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 205922001812 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 205922001813 Walker A/P-loop; other site 205922001814 ATP binding site [chemical binding]; other site 205922001815 Q-loop/lid; other site 205922001816 ABC transporter signature motif; other site 205922001817 Walker B; other site 205922001818 D-loop; other site 205922001819 H-loop/switch region; other site 205922001820 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 205922001821 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 205922001822 putative NAD(P) binding site [chemical binding]; other site 205922001823 homotetramer interface [polypeptide binding]; other site 205922001824 homodimer interface [polypeptide binding]; other site 205922001825 active site 205922001826 Cation efflux family; Region: Cation_efflux; cl00316 205922001827 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 205922001828 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 205922001829 dimerization interface [polypeptide binding]; other site 205922001830 putative active cleft [active] 205922001831 HupE / UreJ protein; Region: HupE_UreJ; cl01011 205922001832 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922001833 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 205922001834 UreF; Region: UreF; pfam01730 205922001835 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 205922001836 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 205922001837 dimer interface [polypeptide binding]; other site 205922001838 catalytic residues [active] 205922001839 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 205922001840 Helix-turn-helix domains; Region: HTH; cl00088 205922001841 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 205922001842 AsmA-like C-terminal region; Region: AsmA_2; cl15864 205922001843 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 205922001844 Ferritin-like domain; Region: Ferritin; pfam00210 205922001845 dinuclear metal binding motif [ion binding]; other site 205922001846 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922001847 Helix-turn-helix domains; Region: HTH; cl00088 205922001848 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 205922001849 dimerization interface [polypeptide binding]; other site 205922001850 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922001851 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 205922001852 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 205922001853 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922001854 EamA-like transporter family; Region: EamA; cl01037 205922001855 EamA-like transporter family; Region: EamA; cl01037 205922001856 Cupin domain; Region: Cupin_2; cl09118 205922001857 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922001858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922001859 hypothetical protein; Provisional; Region: PRK11505 205922001860 psiF repeat; Region: PsiF_repeat; pfam07769 205922001861 psiF repeat; Region: PsiF_repeat; pfam07769 205922001862 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 205922001863 putative chaperone; Provisional; Region: PRK11678 205922001864 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 205922001865 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 205922001866 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 205922001867 substrate binding site [polypeptide binding]; other site 205922001868 dimer interface [polypeptide binding]; other site 205922001869 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 205922001870 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 205922001871 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 205922001872 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 205922001873 dimer interface [polypeptide binding]; other site 205922001874 phosphorylation site [posttranslational modification] 205922001875 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922001876 ATP binding site [chemical binding]; other site 205922001877 Mg2+ binding site [ion binding]; other site 205922001878 G-X-G motif; other site 205922001879 urease subunit alpha; Reviewed; Region: ureC; PRK13207 205922001880 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 205922001881 subunit interactions [polypeptide binding]; other site 205922001882 active site 205922001883 flap region; other site 205922001884 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 205922001885 gamma-beta subunit interface [polypeptide binding]; other site 205922001886 alpha-beta subunit interface [polypeptide binding]; other site 205922001887 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 205922001888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922001889 Coenzyme A binding pocket [chemical binding]; other site 205922001890 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 205922001891 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922001892 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 205922001893 alpha-gamma subunit interface [polypeptide binding]; other site 205922001894 beta-gamma subunit interface [polypeptide binding]; other site 205922001895 UreD urease accessory protein; Region: UreD; cl00530 205922001896 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 205922001897 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 205922001898 Walker A/P-loop; other site 205922001899 ATP binding site [chemical binding]; other site 205922001900 Q-loop/lid; other site 205922001901 ABC transporter signature motif; other site 205922001902 Walker B; other site 205922001903 D-loop; other site 205922001904 H-loop/switch region; other site 205922001905 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 205922001906 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 205922001907 Walker A/P-loop; other site 205922001908 ATP binding site [chemical binding]; other site 205922001909 Q-loop/lid; other site 205922001910 ABC transporter signature motif; other site 205922001911 Walker B; other site 205922001912 D-loop; other site 205922001913 H-loop/switch region; other site 205922001914 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 205922001915 TM-ABC transporter signature motif; other site 205922001916 HEAT repeats; Region: HEAT_2; pfam13646 205922001917 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 205922001918 TM-ABC transporter signature motif; other site 205922001919 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 205922001920 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 205922001921 putative ligand binding site [chemical binding]; other site 205922001922 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 205922001923 ABC-ATPase subunit interface; other site 205922001924 dimer interface [polypeptide binding]; other site 205922001925 putative PBP binding regions; other site 205922001926 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 205922001927 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 205922001928 putative ligand binding residues [chemical binding]; other site 205922001929 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 205922001930 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 205922001931 Walker A/P-loop; other site 205922001932 ATP binding site [chemical binding]; other site 205922001933 Q-loop/lid; other site 205922001934 ABC transporter signature motif; other site 205922001935 Walker B; other site 205922001936 D-loop; other site 205922001937 H-loop/switch region; other site 205922001938 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922001939 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 205922001940 N-terminal plug; other site 205922001941 ligand-binding site [chemical binding]; other site 205922001942 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 205922001943 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922001944 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922001945 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 205922001946 N-terminal plug; other site 205922001947 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 205922001948 ligand-binding site [chemical binding]; other site 205922001949 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 205922001950 Protein of unknown function (DUF461); Region: DUF461; cl01071 205922001951 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 205922001952 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 205922001953 CbiD; Region: CbiD; cl00828 205922001954 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922001955 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 205922001956 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 205922001957 S-adenosylmethionine binding site [chemical binding]; other site 205922001958 precorrin-3B synthase; Region: CobG; TIGR02435 205922001959 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922001960 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922001961 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 205922001962 Precorrin-8X methylmutase; Region: CbiC; pfam02570 205922001963 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922001964 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 205922001965 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 205922001966 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 205922001967 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 205922001968 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 205922001969 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922001970 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 205922001971 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 205922001972 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 205922001973 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 205922001974 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 205922001975 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 205922001976 Peptidase S46; Region: Peptidase_S46; pfam10459 205922001977 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 205922001978 MarC family integral membrane protein; Region: MarC; cl00919 205922001979 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 205922001980 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 205922001981 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 205922001982 dimer interface [polypeptide binding]; other site 205922001983 phosphorylation site [posttranslational modification] 205922001984 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922001985 ATP binding site [chemical binding]; other site 205922001986 Mg2+ binding site [ion binding]; other site 205922001987 G-X-G motif; other site 205922001988 Response regulator receiver domain; Region: Response_reg; pfam00072 205922001989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922001990 active site 205922001991 phosphorylation site [posttranslational modification] 205922001992 intermolecular recognition site; other site 205922001993 dimerization interface [polypeptide binding]; other site 205922001994 Response regulator receiver domain; Region: Response_reg; pfam00072 205922001995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922001996 active site 205922001997 phosphorylation site [posttranslational modification] 205922001998 intermolecular recognition site; other site 205922001999 dimerization interface [polypeptide binding]; other site 205922002000 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 205922002001 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 205922002002 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922002003 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 205922002004 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 205922002005 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 205922002006 purine monophosphate binding site [chemical binding]; other site 205922002007 dimer interface [polypeptide binding]; other site 205922002008 putative catalytic residues [active] 205922002009 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 205922002010 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 205922002011 Helix-turn-helix domains; Region: HTH; cl00088 205922002012 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 205922002013 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 205922002014 FMN binding site [chemical binding]; other site 205922002015 active site 205922002016 catalytic residues [active] 205922002017 substrate binding site [chemical binding]; other site 205922002018 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 205922002019 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 205922002020 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 205922002021 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922002022 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 205922002023 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922002024 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922002025 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 205922002026 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 205922002027 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 205922002028 carboxyltransferase (CT) interaction site; other site 205922002029 biotinylation site [posttranslational modification]; other site 205922002030 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 205922002031 active site 205922002032 trimer interface [polypeptide binding]; other site 205922002033 dimer interface [polypeptide binding]; other site 205922002034 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 205922002035 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 205922002036 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 205922002037 DsbD alpha interface [polypeptide binding]; other site 205922002038 catalytic residues [active] 205922002039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922002040 dimer interface [polypeptide binding]; other site 205922002041 putative CheW interface [polypeptide binding]; other site 205922002042 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 205922002043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922002044 active site 205922002045 phosphorylation site [posttranslational modification] 205922002046 intermolecular recognition site; other site 205922002047 dimerization interface [polypeptide binding]; other site 205922002048 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922002049 metal binding site [ion binding]; metal-binding site 205922002050 active site 205922002051 I-site; other site 205922002052 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 205922002053 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 205922002054 nudix motif; other site 205922002055 translation initiation factor Sui1; Validated; Region: PRK06824 205922002056 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 205922002057 putative rRNA binding site [nucleotide binding]; other site 205922002058 arginine decarboxylase; Provisional; Region: PRK05354 205922002059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 205922002060 dimer interface [polypeptide binding]; other site 205922002061 active site 205922002062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922002063 catalytic residues [active] 205922002064 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 205922002065 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922002066 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922002067 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 205922002068 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 205922002069 MatE; Region: MatE; cl10513 205922002070 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 205922002071 homodimer interface [polypeptide binding]; other site 205922002072 chemical substrate binding site [chemical binding]; other site 205922002073 oligomer interface [polypeptide binding]; other site 205922002074 metal binding site [ion binding]; metal-binding site 205922002075 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 205922002076 S-adenosylmethionine binding site [chemical binding]; other site 205922002077 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 205922002078 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 205922002079 Predicted membrane protein [Function unknown]; Region: COG4655 205922002080 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 205922002081 putative active site [active] 205922002082 heme pocket [chemical binding]; other site 205922002083 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 205922002084 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 205922002085 putative active site [active] 205922002086 heme pocket [chemical binding]; other site 205922002087 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 205922002088 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 205922002089 dimer interface [polypeptide binding]; other site 205922002090 phosphorylation site [posttranslational modification] 205922002091 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922002092 ATP binding site [chemical binding]; other site 205922002093 Mg2+ binding site [ion binding]; other site 205922002094 G-X-G motif; other site 205922002095 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922002096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922002097 active site 205922002098 phosphorylation site [posttranslational modification] 205922002099 intermolecular recognition site; other site 205922002100 dimerization interface [polypeptide binding]; other site 205922002101 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 205922002102 DNA binding residues [nucleotide binding] 205922002103 dimerization interface [polypeptide binding]; other site 205922002104 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 205922002105 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 205922002106 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922002107 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922002108 Type II/IV secretion system protein; Region: T2SE; pfam00437 205922002109 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 205922002110 ATP binding site [chemical binding]; other site 205922002111 Walker A motif; other site 205922002112 hexamer interface [polypeptide binding]; other site 205922002113 Walker B motif; other site 205922002114 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 205922002115 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 205922002116 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 205922002117 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 205922002118 Flp/Fap pilin component; Region: Flp_Fap; cl01585 205922002119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922002120 active site 205922002121 phosphorylation site [posttranslational modification] 205922002122 intermolecular recognition site; other site 205922002123 dimerization interface [polypeptide binding]; other site 205922002124 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 205922002125 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922002126 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 205922002127 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 205922002128 active site 2 [active] 205922002129 active site 1 [active] 205922002130 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 205922002131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922002132 NAD(P) binding site [chemical binding]; other site 205922002133 active site 205922002134 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 205922002135 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 205922002136 dimer interface [polypeptide binding]; other site 205922002137 active site 205922002138 Cache domain; Region: Cache_1; pfam02743 205922002139 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 205922002140 dimerization interface [polypeptide binding]; other site 205922002141 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922002142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922002143 dimer interface [polypeptide binding]; other site 205922002144 putative CheW interface [polypeptide binding]; other site 205922002145 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 205922002146 ATP binding site [chemical binding]; other site 205922002147 H+ Antiporter protein; Region: 2A0121; TIGR00900 205922002148 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 205922002149 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 205922002150 DNA binding residues [nucleotide binding] 205922002151 dimer interface [polypeptide binding]; other site 205922002152 copper binding site [ion binding]; other site 205922002153 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 205922002154 metal-binding site [ion binding] 205922002155 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 205922002156 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 205922002157 metal-binding site [ion binding] 205922002158 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 205922002159 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 205922002160 metal-binding site [ion binding] 205922002161 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922002162 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 205922002163 putative substrate translocation pore; other site 205922002164 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 205922002165 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 205922002166 putative NAD(P) binding site [chemical binding]; other site 205922002167 dimer interface [polypeptide binding]; other site 205922002168 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922002169 Helix-turn-helix domains; Region: HTH; cl00088 205922002170 transcriptional activator TtdR; Provisional; Region: PRK09801 205922002171 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 205922002172 putative effector binding pocket; other site 205922002173 dimerization interface [polypeptide binding]; other site 205922002174 Helix-turn-helix domains; Region: HTH; cl00088 205922002175 benzoate transport; Region: 2A0115; TIGR00895 205922002176 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922002177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922002178 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 205922002179 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 205922002180 active site 205922002181 purine riboside binding site [chemical binding]; other site 205922002182 oxidase reductase; Provisional; Region: PTZ00273 205922002183 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 205922002184 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922002185 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 205922002186 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 205922002187 putative ligand binding site [chemical binding]; other site 205922002188 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 205922002189 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 205922002190 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 205922002191 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 205922002192 active site 205922002193 putative substrate binding pocket [chemical binding]; other site 205922002194 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 205922002195 NADP binding site [chemical binding]; other site 205922002196 homodimer interface [polypeptide binding]; other site 205922002197 active site 205922002198 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 205922002199 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 205922002200 DNA binding residues [nucleotide binding] 205922002201 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 205922002202 TM-ABC transporter signature motif; other site 205922002203 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 205922002204 TM-ABC transporter signature motif; other site 205922002205 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 205922002206 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 205922002207 Walker A/P-loop; other site 205922002208 ATP binding site [chemical binding]; other site 205922002209 Q-loop/lid; other site 205922002210 ABC transporter signature motif; other site 205922002211 Walker B; other site 205922002212 D-loop; other site 205922002213 H-loop/switch region; other site 205922002214 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 205922002215 Uncharacterized conserved protein [Function unknown]; Region: COG1739 205922002216 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 205922002217 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 205922002218 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 205922002219 Helix-turn-helix domains; Region: HTH; cl00088 205922002220 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 205922002221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922002222 Helix-turn-helix domains; Region: HTH; cl00088 205922002223 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 205922002224 dimerization interface [polypeptide binding]; other site 205922002225 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 205922002226 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 205922002227 inhibitor-cofactor binding pocket; inhibition site 205922002228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922002229 catalytic residue [active] 205922002230 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 205922002231 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922002232 tetrameric interface [polypeptide binding]; other site 205922002233 NAD binding site [chemical binding]; other site 205922002234 catalytic residues [active] 205922002235 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 205922002236 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 205922002237 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 205922002238 Family description; Region: UvrD_C_2; cl15862 205922002239 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 205922002240 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 205922002241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922002242 Family description; Region: UvrD_C_2; cl15862 205922002243 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 205922002244 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 205922002245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922002246 metal binding site [ion binding]; metal-binding site 205922002247 active site 205922002248 I-site; other site 205922002249 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922002250 ligand binding site [chemical binding]; other site 205922002251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922002252 Helix-turn-helix domains; Region: HTH; cl00088 205922002253 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 205922002254 dimerization interface [polypeptide binding]; other site 205922002255 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 205922002256 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922002257 tetrameric interface [polypeptide binding]; other site 205922002258 NAD binding site [chemical binding]; other site 205922002259 catalytic residues [active] 205922002260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922002261 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 205922002262 Cupin domain; Region: Cupin_2; cl09118 205922002263 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 205922002264 putative trimer interface [polypeptide binding]; other site 205922002265 putative CoA binding site [chemical binding]; other site 205922002266 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 205922002267 putative trimer interface [polypeptide binding]; other site 205922002268 putative CoA binding site [chemical binding]; other site 205922002269 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 205922002270 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 205922002271 Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I...; Region: PTase; cd02890 205922002272 active site cavity [active] 205922002273 peptide binding pocket; other site 205922002274 lipid binding pocket [chemical binding]; lipid-binding site 205922002275 heterodimer interface [polypeptide binding]; other site 205922002276 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 205922002277 Zn2+ binding site [ion binding]; other site 205922002278 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 205922002279 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 205922002280 NAD binding site [chemical binding]; other site 205922002281 substrate binding site [chemical binding]; other site 205922002282 homodimer interface [polypeptide binding]; other site 205922002283 active site 205922002284 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 205922002285 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 205922002286 substrate binding site; other site 205922002287 tetramer interface; other site 205922002288 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 205922002289 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 205922002290 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 205922002291 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 205922002292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922002293 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922002294 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922002295 active site 205922002296 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922002297 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922002298 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 205922002299 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922002300 multidrug efflux protein; Reviewed; Region: PRK09579 205922002301 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922002302 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 205922002303 dimerization interface [polypeptide binding]; other site 205922002304 putative DNA binding site [nucleotide binding]; other site 205922002305 UTRA domain; Region: UTRA; cl01230 205922002306 Helix-turn-helix domains; Region: HTH; cl00088 205922002307 Flavin Reductases; Region: FlaRed; cl00801 205922002308 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 205922002309 DNA binding residues [nucleotide binding] 205922002310 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 205922002311 putative dimer interface [polypeptide binding]; other site 205922002312 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922002313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922002314 Helix-turn-helix domains; Region: HTH; cl00088 205922002315 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 205922002316 putative dimerization interface [polypeptide binding]; other site 205922002317 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922002318 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922002319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922002320 Helix-turn-helix domains; Region: HTH; cl00088 205922002321 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 205922002322 dimerization interface [polypeptide binding]; other site 205922002323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922002324 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205922002325 NAD(P) binding site [chemical binding]; other site 205922002326 active site 205922002327 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 205922002328 GntP family permease; Region: GntP_permease; pfam02447 205922002329 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 205922002330 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 205922002331 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 205922002332 putative active site [active] 205922002333 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 205922002334 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 205922002335 active site 205922002336 putative substrate binding pocket [chemical binding]; other site 205922002337 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 205922002338 dimer interface [polypeptide binding]; other site 205922002339 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922002340 ligand binding site [chemical binding]; other site 205922002341 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922002342 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 205922002343 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922002344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922002345 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 205922002346 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922002347 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 205922002348 dimerization interface [polypeptide binding]; other site 205922002349 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922002350 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922002351 dimer interface [polypeptide binding]; other site 205922002352 putative CheW interface [polypeptide binding]; other site 205922002353 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 205922002354 catalytic core [active] 205922002355 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 205922002356 active site 205922002357 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 205922002358 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 205922002359 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 205922002360 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922002361 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 205922002362 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922002363 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 205922002364 S-adenosylmethionine binding site [chemical binding]; other site 205922002365 DNA-sulfur modification-associated; Region: DndB; cl14002 205922002366 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 205922002367 Active Sites [active] 205922002368 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 205922002369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922002370 Walker A/P-loop; other site 205922002371 ATP binding site [chemical binding]; other site 205922002372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922002373 ABC transporter signature motif; other site 205922002374 Walker B; other site 205922002375 D-loop; other site 205922002376 H-loop/switch region; other site 205922002377 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 205922002378 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922002379 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 205922002380 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 205922002381 integrase; Provisional; Region: PRK09692 205922002382 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 205922002383 active site 205922002384 Int/Topo IB signature motif; other site 205922002385 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 205922002386 FAD binding domain; Region: FAD_binding_4; pfam01565 205922002387 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 205922002388 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 205922002389 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 205922002390 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 205922002391 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 205922002392 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 205922002393 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 205922002394 Cysteine-rich domain; Region: CCG; pfam02754 205922002395 Cysteine-rich domain; Region: CCG; pfam02754 205922002396 glycolate transporter; Provisional; Region: PRK09695 205922002397 L-lactate permease; Region: Lactate_perm; cl00701 205922002398 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 205922002399 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922002400 DNA-binding site [nucleotide binding]; DNA binding site 205922002401 FCD domain; Region: FCD; cl11656 205922002402 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 205922002403 SmpB-tmRNA interface; other site 205922002404 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 205922002405 Na2 binding site [ion binding]; other site 205922002406 putative substrate binding site 1 [chemical binding]; other site 205922002407 Na binding site 1 [ion binding]; other site 205922002408 putative substrate binding site 2 [chemical binding]; other site 205922002409 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 205922002410 putative coenzyme Q binding site [chemical binding]; other site 205922002411 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 205922002412 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 205922002413 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 205922002414 metal binding site 2 [ion binding]; metal-binding site 205922002415 putative DNA binding helix; other site 205922002416 metal binding site 1 [ion binding]; metal-binding site 205922002417 dimer interface [polypeptide binding]; other site 205922002418 structural Zn2+ binding site [ion binding]; other site 205922002419 recombination and repair protein; Provisional; Region: PRK10869 205922002420 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 205922002421 Walker A/P-loop; other site 205922002422 ATP binding site [chemical binding]; other site 205922002423 Q-loop/lid; other site 205922002424 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 205922002425 Q-loop/lid; other site 205922002426 ABC transporter signature motif; other site 205922002427 Walker B; other site 205922002428 D-loop; other site 205922002429 H-loop/switch region; other site 205922002430 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 205922002431 dimer interface [polypeptide binding]; other site 205922002432 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 205922002433 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 205922002434 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 205922002435 chaperone protein DnaJ; Provisional; Region: PRK10767 205922002436 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 205922002437 HSP70 interaction site [polypeptide binding]; other site 205922002438 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 205922002439 substrate binding site [polypeptide binding]; other site 205922002440 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 205922002441 Zn binding sites [ion binding]; other site 205922002442 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 205922002443 dimer interface [polypeptide binding]; other site 205922002444 dihydrodipicolinate reductase; Provisional; Region: PRK00048 205922002445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922002446 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 205922002447 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 205922002448 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 205922002449 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 205922002450 catalytic site [active] 205922002451 subunit interface [polypeptide binding]; other site 205922002452 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 205922002453 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922002454 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922002455 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 205922002456 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922002457 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922002458 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 205922002459 IMP binding site; other site 205922002460 dimer interface [polypeptide binding]; other site 205922002461 interdomain contacts; other site 205922002462 partial ornithine binding site; other site 205922002463 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 205922002464 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 205922002465 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205922002466 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 205922002467 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 205922002468 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 205922002469 S-adenosylmethionine binding site [chemical binding]; other site 205922002470 FtsH Extracellular; Region: FtsH_ext; pfam06480 205922002471 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 205922002472 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 205922002473 Walker A motif; other site 205922002474 ATP binding site [chemical binding]; other site 205922002475 Walker B motif; other site 205922002476 arginine finger; other site 205922002477 Peptidase family M41; Region: Peptidase_M41; pfam01434 205922002478 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 205922002479 dihydropteroate synthase; Region: DHPS; TIGR01496 205922002480 substrate binding pocket [chemical binding]; other site 205922002481 dimer interface [polypeptide binding]; other site 205922002482 inhibitor binding site; inhibition site 205922002483 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 205922002484 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 205922002485 active site 205922002486 substrate binding site [chemical binding]; other site 205922002487 metal binding site [ion binding]; metal-binding site 205922002488 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 205922002489 substrate binding site [chemical binding]; other site 205922002490 dimer interface [polypeptide binding]; other site 205922002491 catalytic triad [active] 205922002492 Preprotein translocase SecG subunit; Region: SecG; cl09123 205922002493 ribosome maturation protein RimP; Reviewed; Region: PRK00092 205922002494 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 205922002495 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 205922002496 Sm1 motif; other site 205922002497 D1 - D2 interaction site; other site 205922002498 D3 - B interaction site; other site 205922002499 Hfq - Hfq interaction site; other site 205922002500 RNA binding pocket [nucleotide binding]; other site 205922002501 Sm2 motif; other site 205922002502 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 205922002503 NusA N-terminal domain; Region: NusA_N; pfam08529 205922002504 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 205922002505 RNA binding site [nucleotide binding]; other site 205922002506 homodimer interface [polypeptide binding]; other site 205922002507 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 205922002508 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 205922002509 G-X-X-G motif; other site 205922002510 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 205922002511 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 205922002512 translation initiation factor IF-2; Validated; Region: infB; PRK05306 205922002513 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 205922002514 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 205922002515 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 205922002516 G1 box; other site 205922002517 putative GEF interaction site [polypeptide binding]; other site 205922002518 GTP/Mg2+ binding site [chemical binding]; other site 205922002519 Switch I region; other site 205922002520 G2 box; other site 205922002521 G3 box; other site 205922002522 Switch II region; other site 205922002523 G4 box; other site 205922002524 G5 box; other site 205922002525 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 205922002526 Translation-initiation factor 2; Region: IF-2; pfam11987 205922002527 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 205922002528 Ribosome-binding factor A; Region: RBFA; cl00542 205922002529 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 205922002530 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 205922002531 RNA binding site [nucleotide binding]; other site 205922002532 active site 205922002533 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 205922002534 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 205922002535 16S/18S rRNA binding site [nucleotide binding]; other site 205922002536 S13e-L30e interaction site [polypeptide binding]; other site 205922002537 25S rRNA binding site [nucleotide binding]; other site 205922002538 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 205922002539 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 205922002540 RNase E interface [polypeptide binding]; other site 205922002541 trimer interface [polypeptide binding]; other site 205922002542 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 205922002543 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 205922002544 RNase E interface [polypeptide binding]; other site 205922002545 trimer interface [polypeptide binding]; other site 205922002546 active site 205922002547 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 205922002548 putative nucleic acid binding region [nucleotide binding]; other site 205922002549 G-X-X-G motif; other site 205922002550 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 205922002551 RNA binding site [nucleotide binding]; other site 205922002552 domain interface; other site 205922002553 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 205922002554 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 205922002555 dimerization interface [polypeptide binding]; other site 205922002556 active site 205922002557 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 205922002558 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 205922002559 amidase catalytic site [active] 205922002560 Zn binding residues [ion binding]; other site 205922002561 substrate binding site [chemical binding]; other site 205922002562 CobD/Cbib protein; Region: CobD_Cbib; cl00561 205922002563 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922002564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922002565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922002566 dimer interface [polypeptide binding]; other site 205922002567 putative CheW interface [polypeptide binding]; other site 205922002568 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 205922002569 active site 205922002570 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 205922002571 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205922002572 DNA binding site [nucleotide binding] 205922002573 domain linker motif; other site 205922002574 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 205922002575 dimerization interface [polypeptide binding]; other site 205922002576 ligand binding site [chemical binding]; other site 205922002577 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 205922002578 active site 205922002579 phosphorylation site [posttranslational modification] 205922002580 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 205922002581 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 205922002582 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 205922002583 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 205922002584 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 205922002585 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 205922002586 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 205922002587 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 205922002588 putative substrate binding site [chemical binding]; other site 205922002589 putative ATP binding site [chemical binding]; other site 205922002590 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 205922002591 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 205922002592 active site 205922002593 P-loop; other site 205922002594 phosphorylation site [posttranslational modification] 205922002595 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 205922002596 active site 205922002597 P-loop; other site 205922002598 phosphorylation site [posttranslational modification] 205922002599 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 205922002600 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 205922002601 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 205922002602 putative active site [active] 205922002603 putative metal binding site [ion binding]; other site 205922002604 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 205922002605 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 205922002606 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 205922002607 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922002608 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922002609 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 205922002610 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922002611 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 205922002612 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 205922002613 FAD binding pocket [chemical binding]; other site 205922002614 FAD binding motif [chemical binding]; other site 205922002615 catalytic residues [active] 205922002616 NAD binding pocket [chemical binding]; other site 205922002617 phosphate binding motif [ion binding]; other site 205922002618 beta-alpha-beta structure motif; other site 205922002619 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 205922002620 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 205922002621 N-terminal plug; other site 205922002622 ligand-binding site [chemical binding]; other site 205922002623 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922002624 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 205922002625 Sel1 repeat; Region: Sel1; cl02723 205922002626 Sel1 repeat; Region: Sel1; cl02723 205922002627 Sel1 repeat; Region: Sel1; cl02723 205922002628 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 205922002629 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 205922002630 dimer interface [polypeptide binding]; other site 205922002631 active site 205922002632 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922002633 catalytic residues [active] 205922002634 substrate binding site [chemical binding]; other site 205922002635 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 205922002636 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 205922002637 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 205922002638 Walker A/P-loop; other site 205922002639 ATP binding site [chemical binding]; other site 205922002640 Q-loop/lid; other site 205922002641 ABC transporter signature motif; other site 205922002642 Walker B; other site 205922002643 D-loop; other site 205922002644 H-loop/switch region; other site 205922002645 FOG: CBS domain [General function prediction only]; Region: COG0517 205922002646 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 205922002647 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922002648 dimer interface [polypeptide binding]; other site 205922002649 conserved gate region; other site 205922002650 ABC-ATPase subunit interface; other site 205922002651 NMT1-like family; Region: NMT1_2; cl15260 205922002652 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 205922002653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922002654 ABC-ATPase subunit interface; other site 205922002655 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 205922002656 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 205922002657 G1 box; other site 205922002658 putative GEF interaction site [polypeptide binding]; other site 205922002659 GTP/Mg2+ binding site [chemical binding]; other site 205922002660 Switch I region; other site 205922002661 G2 box; other site 205922002662 G3 box; other site 205922002663 Switch II region; other site 205922002664 G4 box; other site 205922002665 G5 box; other site 205922002666 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 205922002667 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 205922002668 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922002669 Walker A/P-loop; other site 205922002670 ATP binding site [chemical binding]; other site 205922002671 Q-loop/lid; other site 205922002672 ABC transporter signature motif; other site 205922002673 Walker B; other site 205922002674 D-loop; other site 205922002675 H-loop/switch region; other site 205922002676 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922002677 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 205922002678 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922002679 Walker A/P-loop; other site 205922002680 ATP binding site [chemical binding]; other site 205922002681 Q-loop/lid; other site 205922002682 ABC transporter signature motif; other site 205922002683 Walker B; other site 205922002684 D-loop; other site 205922002685 H-loop/switch region; other site 205922002686 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922002687 dipeptide transporter; Provisional; Region: PRK10913 205922002688 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 205922002689 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922002690 dimer interface [polypeptide binding]; other site 205922002691 conserved gate region; other site 205922002692 putative PBP binding loops; other site 205922002693 ABC-ATPase subunit interface; other site 205922002694 dipeptide transporter permease DppB; Provisional; Region: PRK10914 205922002695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922002696 dimer interface [polypeptide binding]; other site 205922002697 conserved gate region; other site 205922002698 putative PBP binding loops; other site 205922002699 ABC-ATPase subunit interface; other site 205922002700 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 205922002701 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 205922002702 peptide binding site [polypeptide binding]; other site 205922002703 outer membrane porin, OprD family; Region: OprD; pfam03573 205922002704 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 205922002705 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 205922002706 peptide binding site [polypeptide binding]; other site 205922002707 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 205922002708 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 205922002709 peptide binding site [polypeptide binding]; other site 205922002710 Protein of unknown function (DUF541); Region: SIMPL; cl01077 205922002711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 205922002712 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922002713 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 205922002714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922002715 active site 205922002716 phosphorylation site [posttranslational modification] 205922002717 intermolecular recognition site; other site 205922002718 dimerization interface [polypeptide binding]; other site 205922002719 Helix-turn-helix domains; Region: HTH; cl00088 205922002720 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 205922002721 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922002722 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 205922002723 Transcriptional regulators [Transcription]; Region: FadR; COG2186 205922002724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922002725 DNA-binding site [nucleotide binding]; DNA binding site 205922002726 FCD domain; Region: FCD; cl11656 205922002727 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 205922002728 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 205922002729 putative active site [active] 205922002730 catalytic residue [active] 205922002731 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 205922002732 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922002733 NAD(P) binding site [chemical binding]; other site 205922002734 catalytic residues [active] 205922002735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922002736 D-galactonate transporter; Region: 2A0114; TIGR00893 205922002737 putative substrate translocation pore; other site 205922002738 galactarate dehydratase; Region: galactar-dH20; TIGR03248 205922002739 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 205922002740 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 205922002741 Membrane transport protein; Region: Mem_trans; cl09117 205922002742 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922002743 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 205922002744 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 205922002745 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 205922002746 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 205922002747 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 205922002748 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 205922002749 GatB domain; Region: GatB_Yqey; cl11497 205922002750 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 205922002751 Amidase; Region: Amidase; cl11426 205922002752 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 205922002753 rod shape-determining protein MreB; Provisional; Region: PRK13927 205922002754 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 205922002755 ATP binding site [chemical binding]; other site 205922002756 profilin binding site; other site 205922002757 rod shape-determining protein MreC; Region: MreC; pfam04085 205922002758 rod shape-determining protein MreD; Region: MreD; cl01087 205922002759 Maf-like protein; Region: Maf; pfam02545 205922002760 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 205922002761 active site 205922002762 dimer interface [polypeptide binding]; other site 205922002763 ribonuclease G; Provisional; Region: PRK11712 205922002764 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 205922002765 homodimer interface [polypeptide binding]; other site 205922002766 oligonucleotide binding site [chemical binding]; other site 205922002767 TIGR02099 family protein; Region: TIGR02099 205922002768 AsmA-like C-terminal region; Region: AsmA_2; cl15864 205922002769 Predicted amidohydrolase [General function prediction only]; Region: COG0388 205922002770 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 205922002771 putative active site [active] 205922002772 catalytic triad [active] 205922002773 dimer interface [polypeptide binding]; other site 205922002774 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 205922002775 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 205922002776 Protein of unknown function (DUF615); Region: DUF615; cl01147 205922002777 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 205922002778 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 205922002779 fumarate hydratase; Reviewed; Region: fumC; PRK00485 205922002780 Class II fumarases; Region: Fumarase_classII; cd01362 205922002781 active site 205922002782 tetramer interface [polypeptide binding]; other site 205922002783 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 205922002784 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 205922002785 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 205922002786 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 205922002787 ZIP Zinc transporter; Region: Zip; pfam02535 205922002788 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 205922002789 dimerization domain swap beta strand [polypeptide binding]; other site 205922002790 regulatory protein interface [polypeptide binding]; other site 205922002791 active site 205922002792 regulatory phosphorylation site [posttranslational modification]; other site 205922002793 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 205922002794 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 205922002795 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 205922002796 active site 205922002797 phosphorylation site [posttranslational modification] 205922002798 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 205922002799 30S subunit binding site; other site 205922002800 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 205922002801 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 205922002802 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 205922002803 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 205922002804 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 205922002805 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 205922002806 Walker A/P-loop; other site 205922002807 ATP binding site [chemical binding]; other site 205922002808 Q-loop/lid; other site 205922002809 ABC transporter signature motif; other site 205922002810 Walker B; other site 205922002811 D-loop; other site 205922002812 H-loop/switch region; other site 205922002813 OstA-like protein; Region: OstA; cl00844 205922002814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 205922002815 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 205922002816 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 205922002817 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 205922002818 active site 205922002819 motif I; other site 205922002820 motif II; other site 205922002821 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 205922002822 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 205922002823 putative active site [active] 205922002824 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 205922002825 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 205922002826 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 205922002827 Walker A/P-loop; other site 205922002828 ATP binding site [chemical binding]; other site 205922002829 Q-loop/lid; other site 205922002830 ABC transporter signature motif; other site 205922002831 Walker B; other site 205922002832 D-loop; other site 205922002833 H-loop/switch region; other site 205922002834 Permease; Region: Permease; cl00510 205922002835 mce related protein; Region: MCE; pfam02470 205922002836 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 205922002837 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 205922002838 anti sigma factor interaction site; other site 205922002839 regulatory phosphorylation site [posttranslational modification]; other site 205922002840 BolA-like protein; Region: BolA; cl00386 205922002841 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 205922002842 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 205922002843 hinge; other site 205922002844 active site 205922002845 ATP phosphoribosyltransferase; Region: HisG; cl15266 205922002846 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 205922002847 histidinol dehydrogenase; Region: hisD; TIGR00069 205922002848 NAD binding site [chemical binding]; other site 205922002849 dimerization interface [polypeptide binding]; other site 205922002850 product binding site; other site 205922002851 substrate binding site [chemical binding]; other site 205922002852 zinc binding site [ion binding]; other site 205922002853 catalytic residues [active] 205922002854 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 205922002855 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 205922002856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922002857 homodimer interface [polypeptide binding]; other site 205922002858 catalytic residue [active] 205922002859 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 205922002860 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922002861 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 205922002862 N-terminal plug; other site 205922002863 ligand-binding site [chemical binding]; other site 205922002864 serine endoprotease; Provisional; Region: PRK10898 205922002865 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 205922002866 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 205922002867 protein binding site [polypeptide binding]; other site 205922002868 Uncharacterized conserved protein [Function unknown]; Region: COG0327 205922002869 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 205922002870 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 205922002871 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 205922002872 Active Sites [active] 205922002873 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 205922002874 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 205922002875 CysD dimerization site [polypeptide binding]; other site 205922002876 G1 box; other site 205922002877 putative GEF interaction site [polypeptide binding]; other site 205922002878 GTP/Mg2+ binding site [chemical binding]; other site 205922002879 Switch I region; other site 205922002880 G2 box; other site 205922002881 G3 box; other site 205922002882 Switch II region; other site 205922002883 G4 box; other site 205922002884 G5 box; other site 205922002885 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 205922002886 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 205922002887 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 205922002888 ligand-binding site [chemical binding]; other site 205922002889 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 205922002890 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 205922002891 putative acyl-acceptor binding pocket; other site 205922002892 phosphate acetyltransferase; Reviewed; Region: PRK05632 205922002893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922002894 DRTGG domain; Region: DRTGG; cl12147 205922002895 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 205922002896 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 205922002897 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 205922002898 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 205922002899 catalytic residues [active] 205922002900 dimer interface [polypeptide binding]; other site 205922002901 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 205922002902 putative active site [active] 205922002903 putative FMN binding site [chemical binding]; other site 205922002904 putative substrate binding site [chemical binding]; other site 205922002905 putative catalytic residue [active] 205922002906 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922002907 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 205922002908 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 205922002909 thioredoxin reductase; Provisional; Region: PRK10262 205922002910 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922002911 HopJ type III effector protein; Region: HopJ; pfam08888 205922002912 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 205922002913 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 205922002914 active site 205922002915 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 205922002916 homodecamer interface [polypeptide binding]; other site 205922002917 GTP cyclohydrolase I; Provisional; Region: PLN03044 205922002918 active site 205922002919 putative catalytic site residues [active] 205922002920 zinc binding site [ion binding]; other site 205922002921 GTP-CH-I/GFRP interaction surface; other site 205922002922 dihydromonapterin reductase; Provisional; Region: PRK06483 205922002923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922002924 NAD(P) binding site [chemical binding]; other site 205922002925 active site 205922002926 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922002927 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 205922002928 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 205922002929 DNA binding residues [nucleotide binding] 205922002930 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 205922002931 PAS domain; Region: PAS_9; pfam13426 205922002932 putative active site [active] 205922002933 heme pocket [chemical binding]; other site 205922002934 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922002935 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 205922002936 Helix-turn-helix domains; Region: HTH; cl00088 205922002937 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 205922002938 dimerization interface [polypeptide binding]; other site 205922002939 LrgA family; Region: LrgA; cl00608 205922002940 LrgB-like family; Region: LrgB; cl00596 205922002941 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 205922002942 intersubunit interface [polypeptide binding]; other site 205922002943 active site 205922002944 Zn2+ binding site [ion binding]; other site 205922002945 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922002946 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 205922002947 homodimer interface [polypeptide binding]; other site 205922002948 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205922002949 NAD binding site [chemical binding]; other site 205922002950 active site 205922002951 S-type Pyocin; Region: Pyocin_S; pfam06958 205922002952 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 205922002953 active site 205922002954 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 205922002955 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 205922002956 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 205922002957 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 205922002958 DNA binding residues [nucleotide binding] 205922002959 dimerization interface [polypeptide binding]; other site 205922002960 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922002961 Helix-turn-helix domains; Region: HTH; cl00088 205922002962 Bacterial transcriptional regulator; Region: IclR; pfam01614 205922002963 Cupin domain; Region: Cupin_2; cl09118 205922002964 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 205922002965 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 205922002966 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 205922002967 maleylacetoacetate isomerase; Region: maiA; TIGR01262 205922002968 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922002969 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 205922002970 dimer interface [polypeptide binding]; other site 205922002971 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 205922002972 N-terminal domain interface [polypeptide binding]; other site 205922002973 benzoate transport; Region: 2A0115; TIGR00895 205922002974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922002975 putative substrate translocation pore; other site 205922002976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922002977 Uncharacterized conserved protein [Function unknown]; Region: COG2912 205922002978 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 205922002979 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 205922002980 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 205922002981 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 205922002982 NAD binding site [chemical binding]; other site 205922002983 Phe binding site; other site 205922002984 YebG protein; Region: YebG; cl01217 205922002985 Phosphate-starvation-inducible E; Region: PsiE; cl01264 205922002986 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 205922002987 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 205922002988 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 205922002989 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 205922002990 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 205922002991 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 205922002992 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922002993 Helix-turn-helix domains; Region: HTH; cl00088 205922002994 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 205922002995 dimerization interface [polypeptide binding]; other site 205922002996 substrate binding pocket [chemical binding]; other site 205922002997 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 205922002998 30S subunit binding site; other site 205922002999 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 205922003000 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922003001 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 205922003002 N-terminal plug; other site 205922003003 ligand-binding site [chemical binding]; other site 205922003004 fec operon regulator FecR; Reviewed; Region: PRK09774 205922003005 FecR protein; Region: FecR; pfam04773 205922003006 RNA polymerase sigma factor; Provisional; Region: PRK12528 205922003007 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922003008 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 205922003009 DNA binding residues [nucleotide binding] 205922003010 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 205922003011 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922003012 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922003013 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 205922003014 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 205922003015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922003016 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 205922003017 DNA binding residues [nucleotide binding] 205922003018 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922003019 FecR protein; Region: FecR; pfam04773 205922003020 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922003021 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922003022 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 205922003023 N-terminal plug; other site 205922003024 ligand-binding site [chemical binding]; other site 205922003025 Cupin domain; Region: Cupin_2; cl09118 205922003026 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922003027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922003028 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 205922003029 EamA-like transporter family; Region: EamA; cl01037 205922003030 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 205922003031 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 205922003032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003033 transcriptional regulator; Provisional; Region: PRK10632 205922003034 Helix-turn-helix domains; Region: HTH; cl00088 205922003035 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 205922003036 putative effector binding pocket; other site 205922003037 dimerization interface [polypeptide binding]; other site 205922003038 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922003039 Fusaric acid resistance protein family; Region: FUSC; pfam04632 205922003040 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 205922003041 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 205922003042 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922003043 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922003044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 205922003045 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922003046 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922003047 putative substrate translocation pore; other site 205922003048 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922003049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922003050 Helix-turn-helix domains; Region: HTH; cl00088 205922003051 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 205922003052 putative effector binding pocket; other site 205922003053 dimerization interface [polypeptide binding]; other site 205922003054 short chain dehydrogenase; Provisional; Region: PRK05693 205922003055 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 205922003056 NADP binding site [chemical binding]; other site 205922003057 active site 205922003058 steroid binding site; other site 205922003059 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922003060 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922003061 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922003062 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922003063 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 205922003064 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 205922003065 Substrate binding site; other site 205922003066 Cupin domain; Region: Cupin_2; cl09118 205922003067 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 205922003068 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 205922003069 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 205922003070 active site 205922003071 Right handed beta helix region; Region: Beta_helix; pfam13229 205922003072 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 205922003073 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 205922003074 PilZ domain; Region: PilZ; cl01260 205922003075 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922003076 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 205922003077 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 205922003078 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 205922003079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003080 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 205922003081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003082 Protein of unknown function (DUF328); Region: DUF328; cl01143 205922003083 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 205922003084 NodB motif; other site 205922003085 active site 205922003086 catalytic site [active] 205922003087 metal binding site [ion binding]; metal-binding site 205922003088 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 205922003089 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 205922003090 putative active site [active] 205922003091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922003092 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 205922003093 trimer interface [polypeptide binding]; other site 205922003094 dimer interface [polypeptide binding]; other site 205922003095 putative active site [active] 205922003096 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 205922003097 MoaE interaction surface [polypeptide binding]; other site 205922003098 MoeB interaction surface [polypeptide binding]; other site 205922003099 thiocarboxylated glycine; other site 205922003100 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 205922003101 MoaE homodimer interface [polypeptide binding]; other site 205922003102 MoaD interaction [polypeptide binding]; other site 205922003103 active site residues [active] 205922003104 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 205922003105 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 205922003106 substrate binding pocket [chemical binding]; other site 205922003107 membrane-bound complex binding site; other site 205922003108 hinge residues; other site 205922003109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 205922003110 YheO-like PAS domain; Region: PAS_6; pfam08348 205922003111 Helix-turn-helix domains; Region: HTH; cl00088 205922003112 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 205922003113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003114 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 205922003115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003116 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 205922003117 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 205922003118 ATP binding site [chemical binding]; other site 205922003119 Mg++ binding site [ion binding]; other site 205922003120 motif III; other site 205922003121 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 205922003122 nucleotide binding region [chemical binding]; other site 205922003123 ATP-binding site [chemical binding]; other site 205922003124 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 205922003125 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922003126 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 205922003127 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 205922003128 substrate binding pocket [chemical binding]; other site 205922003129 membrane-bound complex binding site; other site 205922003130 hinge residues; other site 205922003131 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 205922003132 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003133 conserved gate region; other site 205922003134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003135 dimer interface [polypeptide binding]; other site 205922003136 ABC-ATPase subunit interface; other site 205922003137 putative PBP binding loops; other site 205922003138 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922003139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003140 dimer interface [polypeptide binding]; other site 205922003141 conserved gate region; other site 205922003142 putative PBP binding loops; other site 205922003143 ABC-ATPase subunit interface; other site 205922003144 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922003145 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922003146 Walker A/P-loop; other site 205922003147 ATP binding site [chemical binding]; other site 205922003148 Q-loop/lid; other site 205922003149 ABC transporter signature motif; other site 205922003150 Walker B; other site 205922003151 D-loop; other site 205922003152 H-loop/switch region; other site 205922003153 Transcriptional regulators [Transcription]; Region: FadR; COG2186 205922003154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922003155 DNA-binding site [nucleotide binding]; DNA binding site 205922003156 FCD domain; Region: FCD; cl11656 205922003157 cyanate transporter; Region: CynX; TIGR00896 205922003158 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922003159 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 205922003160 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 205922003161 GIY-YIG motif/motif A; other site 205922003162 putative active site [active] 205922003163 putative metal binding site [ion binding]; other site 205922003164 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922003165 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 205922003166 C-terminal domain interface [polypeptide binding]; other site 205922003167 GSH binding site (G-site) [chemical binding]; other site 205922003168 dimer interface [polypeptide binding]; other site 205922003169 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 205922003170 N-terminal domain interface [polypeptide binding]; other site 205922003171 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 205922003172 catalytic residues [active] 205922003173 Nucleoid-associated protein [General function prediction only]; Region: COG3081 205922003174 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 205922003175 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 205922003176 IHF dimer interface [polypeptide binding]; other site 205922003177 IHF - DNA interface [nucleotide binding]; other site 205922003178 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922003179 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 205922003180 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 205922003181 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 205922003182 HIGH motif; other site 205922003183 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 205922003184 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 205922003185 active site 205922003186 KMSKS motif; other site 205922003187 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 205922003188 tRNA binding surface [nucleotide binding]; other site 205922003189 anticodon binding site; other site 205922003190 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 205922003191 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 205922003192 multifunctional aminopeptidase A; Provisional; Region: PRK00913 205922003193 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 205922003194 interface (dimer of trimers) [polypeptide binding]; other site 205922003195 Substrate-binding/catalytic site; other site 205922003196 Zn-binding sites [ion binding]; other site 205922003197 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 205922003198 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 205922003199 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 205922003200 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 205922003201 GTP-binding protein LepA; Provisional; Region: PRK05433 205922003202 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 205922003203 G1 box; other site 205922003204 putative GEF interaction site [polypeptide binding]; other site 205922003205 GTP/Mg2+ binding site [chemical binding]; other site 205922003206 Switch I region; other site 205922003207 G2 box; other site 205922003208 G3 box; other site 205922003209 Switch II region; other site 205922003210 G4 box; other site 205922003211 G5 box; other site 205922003212 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 205922003213 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 205922003214 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 205922003215 signal peptidase I; Provisional; Region: PRK10861 205922003216 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 205922003217 Catalytic site [active] 205922003218 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 205922003219 ribonuclease III; Reviewed; Region: rnc; PRK00102 205922003220 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 205922003221 dimerization interface [polypeptide binding]; other site 205922003222 active site 205922003223 metal binding site [ion binding]; metal-binding site 205922003224 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 205922003225 dsRNA binding site [nucleotide binding]; other site 205922003226 GTPase Era; Reviewed; Region: era; PRK00089 205922003227 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 205922003228 G1 box; other site 205922003229 GTP/Mg2+ binding site [chemical binding]; other site 205922003230 Switch I region; other site 205922003231 G2 box; other site 205922003232 Switch II region; other site 205922003233 G3 box; other site 205922003234 G4 box; other site 205922003235 G5 box; other site 205922003236 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 205922003237 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 205922003238 Recombination protein O N terminal; Region: RecO_N; cl15812 205922003239 Recombination protein O C terminal; Region: RecO_C; pfam02565 205922003240 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 205922003241 active site 205922003242 hydrophilic channel; other site 205922003243 dimerization interface [polypeptide binding]; other site 205922003244 catalytic residues [active] 205922003245 active site lid [active] 205922003246 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 205922003247 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 205922003248 substrate binding pocket [chemical binding]; other site 205922003249 membrane-bound complex binding site; other site 205922003250 hinge residues; other site 205922003251 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922003252 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922003253 catalytic residue [active] 205922003254 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 205922003255 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 205922003256 dimerization interface [polypeptide binding]; other site 205922003257 ATP binding site [chemical binding]; other site 205922003258 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 205922003259 dimerization interface [polypeptide binding]; other site 205922003260 ATP binding site [chemical binding]; other site 205922003261 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 205922003262 putative active site [active] 205922003263 catalytic triad [active] 205922003264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 205922003265 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 205922003266 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 205922003267 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 205922003268 active site turn [active] 205922003269 phosphorylation site [posttranslational modification] 205922003270 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 205922003271 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 205922003272 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 205922003273 HPr interaction site; other site 205922003274 glycerol kinase (GK) interaction site [polypeptide binding]; other site 205922003275 active site 205922003276 phosphorylation site [posttranslational modification] 205922003277 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 205922003278 dimerization domain swap beta strand [polypeptide binding]; other site 205922003279 regulatory protein interface [polypeptide binding]; other site 205922003280 active site 205922003281 regulatory phosphorylation site [posttranslational modification]; other site 205922003282 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 205922003283 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 205922003284 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 205922003285 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 205922003286 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 205922003287 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 205922003288 dimer interface [polypeptide binding]; other site 205922003289 active site 205922003290 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 205922003291 dimer interface [polypeptide binding]; other site 205922003292 active site 205922003293 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 205922003294 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 205922003295 active site 205922003296 dimer interface [polypeptide binding]; other site 205922003297 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 205922003298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922003299 DNA-binding site [nucleotide binding]; DNA binding site 205922003300 UTRA domain; Region: UTRA; cl01230 205922003301 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 205922003302 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 205922003303 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 205922003304 nudix motif; other site 205922003305 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 205922003306 putative active site [active] 205922003307 putative CoA binding site [chemical binding]; other site 205922003308 nudix motif; other site 205922003309 metal binding site [ion binding]; metal-binding site 205922003310 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 205922003311 trimer interface [polypeptide binding]; other site 205922003312 putative metal binding site [ion binding]; other site 205922003313 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 205922003314 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 205922003315 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 205922003316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003317 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922003318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922003319 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922003320 putative substrate translocation pore; other site 205922003321 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 205922003322 Domain of unknown function DUF21; Region: DUF21; pfam01595 205922003323 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 205922003324 Transporter associated domain; Region: CorC_HlyC; cl08393 205922003325 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 205922003326 signal recognition particle protein; Provisional; Region: PRK10867 205922003327 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 205922003328 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 205922003329 P loop; other site 205922003330 GTP binding site [chemical binding]; other site 205922003331 Signal peptide binding domain; Region: SRP_SPB; pfam02978 205922003332 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 205922003333 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 205922003334 RimM N-terminal domain; Region: RimM; pfam01782 205922003335 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 205922003336 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 205922003337 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 205922003338 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 205922003339 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 205922003340 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922003341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003342 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 205922003343 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 205922003344 active site 205922003345 Int/Topo IB signature motif; other site 205922003346 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 205922003347 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 205922003348 dimerization domain [polypeptide binding]; other site 205922003349 dimer interface [polypeptide binding]; other site 205922003350 catalytic residues [active] 205922003351 homoserine dehydrogenase; Provisional; Region: PRK06349 205922003352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003353 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 205922003354 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 205922003355 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 205922003356 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 205922003357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922003358 catalytic residue [active] 205922003359 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922003360 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 205922003361 substrate binding pocket [chemical binding]; other site 205922003362 membrane-bound complex binding site; other site 205922003363 hinge residues; other site 205922003364 PAS fold; Region: PAS; pfam00989 205922003365 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 205922003366 putative active site [active] 205922003367 heme pocket [chemical binding]; other site 205922003368 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 205922003369 conserved hypothetical protein; Region: TIGR02285 205922003370 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 205922003371 CoA-transferase family III; Region: CoA_transf_3; pfam02515 205922003372 YaeQ protein; Region: YaeQ; cl01913 205922003373 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 205922003374 DHH family; Region: DHH; pfam01368 205922003375 DHHA1 domain; Region: DHHA1; pfam02272 205922003376 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 205922003377 active site 205922003378 FMN binding site [chemical binding]; other site 205922003379 substrate binding site [chemical binding]; other site 205922003380 homotetramer interface [polypeptide binding]; other site 205922003381 catalytic residue [active] 205922003382 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 205922003383 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 205922003384 BRO family, N-terminal domain; Region: Bro-N; cl10591 205922003385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922003386 AAA domain; Region: AAA_21; pfam13304 205922003387 Walker A/P-loop; other site 205922003388 ATP binding site [chemical binding]; other site 205922003389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922003390 ABC transporter signature motif; other site 205922003391 Walker B; other site 205922003392 D-loop; other site 205922003393 H-loop/switch region; other site 205922003394 RloB-like protein; Region: RloB; pfam13707 205922003395 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 205922003396 Spore germination protein; Region: Spore_permease; cl15802 205922003397 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922003398 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 205922003399 tetrameric interface [polypeptide binding]; other site 205922003400 NAD binding site [chemical binding]; other site 205922003401 catalytic residues [active] 205922003402 substrate binding site [chemical binding]; other site 205922003403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003404 dimer interface [polypeptide binding]; other site 205922003405 conserved gate region; other site 205922003406 ABC-ATPase subunit interface; other site 205922003407 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 205922003408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003409 dimer interface [polypeptide binding]; other site 205922003410 putative PBP binding loops; other site 205922003411 ABC-ATPase subunit interface; other site 205922003412 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922003413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922003414 Walker A/P-loop; other site 205922003415 ATP binding site [chemical binding]; other site 205922003416 Q-loop/lid; other site 205922003417 ABC transporter signature motif; other site 205922003418 Walker B; other site 205922003419 D-loop; other site 205922003420 H-loop/switch region; other site 205922003421 TOBE domain; Region: TOBE_2; cl01440 205922003422 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 205922003423 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 205922003424 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922003425 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 205922003426 tetrameric interface [polypeptide binding]; other site 205922003427 NAD binding site [chemical binding]; other site 205922003428 catalytic residues [active] 205922003429 substrate binding site [chemical binding]; other site 205922003430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922003431 Helix-turn-helix domains; Region: HTH; cl00088 205922003432 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 205922003433 putative substrate binding pocket [chemical binding]; other site 205922003434 dimerization interface [polypeptide binding]; other site 205922003435 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 205922003436 putative metal binding site [ion binding]; other site 205922003437 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922003438 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 205922003439 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 205922003440 dimerization interface [polypeptide binding]; other site 205922003441 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922003442 dimer interface [polypeptide binding]; other site 205922003443 putative CheW interface [polypeptide binding]; other site 205922003444 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 205922003445 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 205922003446 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 205922003447 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922003448 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 205922003449 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 205922003450 putative binding surface; other site 205922003451 active site 205922003452 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922003453 ATP binding site [chemical binding]; other site 205922003454 Mg2+ binding site [ion binding]; other site 205922003455 G-X-G motif; other site 205922003456 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 205922003457 Response regulator receiver domain; Region: Response_reg; pfam00072 205922003458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922003459 active site 205922003460 phosphorylation site [posttranslational modification] 205922003461 intermolecular recognition site; other site 205922003462 dimerization interface [polypeptide binding]; other site 205922003463 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 205922003464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922003465 active site 205922003466 phosphorylation site [posttranslational modification] 205922003467 intermolecular recognition site; other site 205922003468 dimerization interface [polypeptide binding]; other site 205922003469 CheB methylesterase; Region: CheB_methylest; pfam01339 205922003470 Response regulator receiver domain; Region: Response_reg; pfam00072 205922003471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922003472 active site 205922003473 phosphorylation site [posttranslational modification] 205922003474 intermolecular recognition site; other site 205922003475 dimerization interface [polypeptide binding]; other site 205922003476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922003477 metal binding site [ion binding]; metal-binding site 205922003478 active site 205922003479 I-site; other site 205922003480 RF-1 domain; Region: RF-1; cl02875 205922003481 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 205922003482 RF-1 domain; Region: RF-1; cl02875 205922003483 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 205922003484 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 205922003485 dimer interface [polypeptide binding]; other site 205922003486 putative anticodon binding site; other site 205922003487 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 205922003488 motif 1; other site 205922003489 active site 205922003490 motif 2; other site 205922003491 motif 3; other site 205922003492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 205922003493 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 205922003494 conserved hypothetical protein; Region: QEGLA; TIGR02421 205922003495 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922003496 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 205922003497 flagellar motor protein MotB; Validated; Region: motB; PRK05996 205922003498 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922003499 ligand binding site [chemical binding]; other site 205922003500 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 205922003501 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 205922003502 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 205922003503 adenylate kinase; Reviewed; Region: adk; PRK00279 205922003504 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 205922003505 AMP-binding site [chemical binding]; other site 205922003506 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 205922003507 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 205922003508 Protein of unknown function DUF72; Region: DUF72; cl00777 205922003509 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 205922003510 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 205922003511 tetramer interface [polypeptide binding]; other site 205922003512 active site 205922003513 Mg2+/Mn2+ binding site [ion binding]; other site 205922003514 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 205922003515 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922003516 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922003517 Helix-turn-helix domains; Region: HTH; cl00088 205922003518 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 205922003519 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922003520 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922003521 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922003522 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922003523 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 205922003524 Fic family protein [Function unknown]; Region: COG3177 205922003525 Fic/DOC family; Region: Fic; cl00960 205922003526 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 205922003527 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 205922003528 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 205922003529 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 205922003530 putative acyl-acceptor binding pocket; other site 205922003531 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 205922003532 DNA-binding site [nucleotide binding]; DNA binding site 205922003533 RNA-binding motif; other site 205922003534 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 205922003535 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 205922003536 S-adenosylmethionine binding site [chemical binding]; other site 205922003537 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 205922003538 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 205922003539 metal binding site [ion binding]; metal-binding site 205922003540 dimer interface [polypeptide binding]; other site 205922003541 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 205922003542 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 205922003543 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 205922003544 Ligand binding site; other site 205922003545 DXD motif; other site 205922003546 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 205922003547 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 205922003548 putative ATP binding site [chemical binding]; other site 205922003549 putative substrate interface [chemical binding]; other site 205922003550 Fe-S metabolism associated domain; Region: SufE; cl00951 205922003551 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 205922003552 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 205922003553 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922003554 catalytic residue [active] 205922003555 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 205922003556 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 205922003557 putative trimer interface [polypeptide binding]; other site 205922003558 putative CoA binding site [chemical binding]; other site 205922003559 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 205922003560 ArsC family; Region: ArsC; pfam03960 205922003561 putative catalytic residues [active] 205922003562 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 205922003563 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_3; cd04327 205922003564 active site 205922003565 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_3; cd04327 205922003566 active site 205922003567 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 205922003568 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 205922003569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922003570 homodimer interface [polypeptide binding]; other site 205922003571 catalytic residue [active] 205922003572 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 205922003573 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205922003574 metal binding triad; other site 205922003575 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 205922003576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922003577 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 205922003578 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 205922003579 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 205922003580 active site 205922003581 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 205922003582 rRNA interaction site [nucleotide binding]; other site 205922003583 S8 interaction site; other site 205922003584 putative laminin-1 binding site; other site 205922003585 elongation factor Ts; Provisional; Region: tsf; PRK09377 205922003586 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 205922003587 Elongation factor TS; Region: EF_TS; pfam00889 205922003588 Elongation factor TS; Region: EF_TS; pfam00889 205922003589 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 205922003590 putative nucleotide binding site [chemical binding]; other site 205922003591 uridine monophosphate binding site [chemical binding]; other site 205922003592 homohexameric interface [polypeptide binding]; other site 205922003593 ribosome recycling factor; Reviewed; Region: frr; PRK00083 205922003594 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 205922003595 hinge region; other site 205922003596 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 205922003597 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 205922003598 catalytic residue [active] 205922003599 putative FPP diphosphate binding site; other site 205922003600 putative FPP binding hydrophobic cleft; other site 205922003601 dimer interface [polypeptide binding]; other site 205922003602 putative IPP diphosphate binding site; other site 205922003603 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 205922003604 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 205922003605 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 205922003606 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 205922003607 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 205922003608 zinc metallopeptidase RseP; Provisional; Region: PRK10779 205922003609 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 205922003610 active site 205922003611 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 205922003612 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 205922003613 protein binding site [polypeptide binding]; other site 205922003614 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 205922003615 putative substrate binding region [chemical binding]; other site 205922003616 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 205922003617 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922003618 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922003619 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922003620 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922003621 Surface antigen; Region: Bac_surface_Ag; cl03097 205922003622 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 205922003623 periplasmic chaperone; Provisional; Region: PRK10780 205922003624 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 205922003625 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 205922003626 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 205922003627 trimer interface [polypeptide binding]; other site 205922003628 active site 205922003629 UDP-GlcNAc binding site [chemical binding]; other site 205922003630 lipid binding site [chemical binding]; lipid-binding site 205922003631 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 205922003632 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 205922003633 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 205922003634 active site 205922003635 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 205922003636 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 205922003637 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 205922003638 RNA/DNA hybrid binding site [nucleotide binding]; other site 205922003639 active site 205922003640 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 205922003641 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 205922003642 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 205922003643 generic binding surface II; other site 205922003644 generic binding surface I; other site 205922003645 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 205922003646 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922003647 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 205922003648 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 205922003649 Ligand Binding Site [chemical binding]; other site 205922003650 TilS substrate binding domain; Region: TilS; pfam09179 205922003651 B3/4 domain; Region: B3_4; cl11458 205922003652 CTP synthetase; Validated; Region: pyrG; PRK05380 205922003653 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 205922003654 Catalytic site [active] 205922003655 active site 205922003656 UTP binding site [chemical binding]; other site 205922003657 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 205922003658 active site 205922003659 putative oxyanion hole; other site 205922003660 catalytic triad [active] 205922003661 NeuB family; Region: NeuB; cl00496 205922003662 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 205922003663 enolase; Provisional; Region: eno; PRK00077 205922003664 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 205922003665 dimer interface [polypeptide binding]; other site 205922003666 metal binding site [ion binding]; metal-binding site 205922003667 substrate binding pocket [chemical binding]; other site 205922003668 Septum formation initiator; Region: DivIC; cl11433 205922003669 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 205922003670 substrate binding site; other site 205922003671 dimer interface; other site 205922003672 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922003673 Helix-turn-helix domains; Region: HTH; cl00088 205922003674 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 205922003675 putative effector binding pocket; other site 205922003676 putative dimerization interface [polypeptide binding]; other site 205922003677 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 205922003678 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 205922003679 substrate binding site [chemical binding]; other site 205922003680 catalytic Zn binding site [ion binding]; other site 205922003681 NAD binding site [chemical binding]; other site 205922003682 structural Zn binding site [ion binding]; other site 205922003683 dimer interface [polypeptide binding]; other site 205922003684 Predicted esterase [General function prediction only]; Region: COG0627 205922003685 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922003686 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 205922003687 homotrimer interaction site [polypeptide binding]; other site 205922003688 zinc binding site [ion binding]; other site 205922003689 CDP-binding sites; other site 205922003690 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 205922003691 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 205922003692 Permutation of conserved domain; other site 205922003693 active site 205922003694 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 205922003695 Survival protein SurE; Region: SurE; cl00448 205922003696 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 205922003697 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 205922003698 S-adenosylmethionine binding site [chemical binding]; other site 205922003699 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205922003700 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 205922003701 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 205922003702 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 205922003703 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922003704 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 205922003705 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 205922003706 DNA binding residues [nucleotide binding] 205922003707 Ferredoxin [Energy production and conversion]; Region: COG1146 205922003708 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 205922003709 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 205922003710 MutS domain I; Region: MutS_I; pfam01624 205922003711 MutS domain II; Region: MutS_II; pfam05188 205922003712 MutS family domain IV; Region: MutS_IV; pfam05190 205922003713 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 205922003714 Walker A/P-loop; other site 205922003715 ATP binding site [chemical binding]; other site 205922003716 Q-loop/lid; other site 205922003717 ABC transporter signature motif; other site 205922003718 Walker B; other site 205922003719 D-loop; other site 205922003720 H-loop/switch region; other site 205922003721 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 205922003722 non-specific DNA binding site [nucleotide binding]; other site 205922003723 salt bridge; other site 205922003724 sequence-specific DNA binding site [nucleotide binding]; other site 205922003725 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 205922003726 Catalytic site [active] 205922003727 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 205922003728 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 205922003729 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922003730 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 205922003731 Baseplate J-like protein; Region: Baseplate_J; cl01294 205922003732 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 205922003733 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 205922003734 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 205922003735 Phage Tail Collar Domain; Region: Collar; pfam07484 205922003736 Phage Tail Collar Domain; Region: Collar; pfam07484 205922003737 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 205922003738 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 205922003739 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 205922003740 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 205922003741 Phage tail tube protein FII; Region: Phage_tube; cl01390 205922003742 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 205922003743 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 205922003744 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 205922003745 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 205922003746 Phage Tail Protein X; Region: Phage_tail_X; cl02088 205922003747 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922003748 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 205922003749 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 205922003750 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 205922003751 Phage tail tube protein; Region: Tail_tube; pfam10618 205922003752 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 205922003753 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 205922003754 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 205922003755 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922003756 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 205922003757 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 205922003758 Phage protein GP46; Region: GP46; cl01814 205922003759 Baseplate J-like protein; Region: Baseplate_J; cl01294 205922003760 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 205922003761 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 205922003762 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 205922003763 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 205922003764 catalytic residue [active] 205922003765 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 205922003766 Competence-damaged protein; Region: CinA; cl00666 205922003767 recombinase A; Provisional; Region: recA; PRK09354 205922003768 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 205922003769 hexamer interface [polypeptide binding]; other site 205922003770 Walker A motif; other site 205922003771 ATP binding site [chemical binding]; other site 205922003772 Walker B motif; other site 205922003773 RecX family; Region: RecX; cl00936 205922003774 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 205922003775 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 205922003776 DTW domain; Region: DTW; cl01221 205922003777 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922003778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922003779 active site 205922003780 phosphorylation site [posttranslational modification] 205922003781 intermolecular recognition site; other site 205922003782 dimerization interface [polypeptide binding]; other site 205922003783 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 205922003784 DNA binding residues [nucleotide binding] 205922003785 dimerization interface [polypeptide binding]; other site 205922003786 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 205922003787 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 205922003788 Helix-turn-helix domains; Region: HTH; cl00088 205922003789 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 205922003790 putative dimerization interface [polypeptide binding]; other site 205922003791 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 205922003792 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 205922003793 FAD binding pocket [chemical binding]; other site 205922003794 FAD binding motif [chemical binding]; other site 205922003795 phosphate binding motif [ion binding]; other site 205922003796 beta-alpha-beta structure motif; other site 205922003797 NAD binding pocket [chemical binding]; other site 205922003798 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 205922003799 homodimer interaction site [polypeptide binding]; other site 205922003800 cofactor binding site; other site 205922003801 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 205922003802 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 205922003803 NADP binding site [chemical binding]; other site 205922003804 active site 205922003805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 205922003806 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 205922003807 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 205922003808 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 205922003809 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 205922003810 RNA binding surface [nucleotide binding]; other site 205922003811 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 205922003812 active site 205922003813 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922003814 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922003815 Coenzyme A binding pocket [chemical binding]; other site 205922003816 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 205922003817 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 205922003818 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 205922003819 FeS/SAM binding site; other site 205922003820 TRAM domain; Region: TRAM; cl01282 205922003821 K+ potassium transporter; Region: K_trans; cl15781 205922003822 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 205922003823 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 205922003824 Predicted integral membrane protein [Function unknown]; Region: COG0392 205922003825 Uncharacterized conserved protein [Function unknown]; Region: COG2898 205922003826 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 205922003827 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 205922003828 active site 205922003829 DNA polymerase IV; Validated; Region: PRK02406 205922003830 DNA binding site [nucleotide binding] 205922003831 prolyl-tRNA synthetase; Provisional; Region: PRK09194 205922003832 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 205922003833 dimer interface [polypeptide binding]; other site 205922003834 motif 1; other site 205922003835 active site 205922003836 motif 2; other site 205922003837 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 205922003838 putative deacylase active site [active] 205922003839 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 205922003840 active site 205922003841 motif 3; other site 205922003842 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 205922003843 anticodon binding site; other site 205922003844 muropeptide transporter; Validated; Region: ampG; PRK11010 205922003845 muropeptide transporter; Validated; Region: ampG; PRK11010 205922003846 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 205922003847 DNA binding site [nucleotide binding] 205922003848 active site 205922003849 Protein of unknown function, DUF481; Region: DUF481; cl01213 205922003850 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 205922003851 DNA-binding site [nucleotide binding]; DNA binding site 205922003852 RNA-binding motif; other site 205922003853 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 205922003854 trimer interface [polypeptide binding]; other site 205922003855 active site 205922003856 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 205922003857 putative active site [active] 205922003858 putative metal binding site [ion binding]; other site 205922003859 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 205922003860 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 205922003861 ATP binding site [chemical binding]; other site 205922003862 putative Mg++ binding site [ion binding]; other site 205922003863 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 205922003864 nucleotide binding region [chemical binding]; other site 205922003865 ATP-binding site [chemical binding]; other site 205922003866 DEAD/H associated; Region: DEAD_assoc; pfam08494 205922003867 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 205922003868 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922003869 Walker A/P-loop; other site 205922003870 ATP binding site [chemical binding]; other site 205922003871 Q-loop/lid; other site 205922003872 ABC transporter signature motif; other site 205922003873 Walker B; other site 205922003874 D-loop; other site 205922003875 H-loop/switch region; other site 205922003876 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 205922003877 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 205922003878 active site 205922003879 Zn binding site [ion binding]; other site 205922003880 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922003881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003882 dimer interface [polypeptide binding]; other site 205922003883 conserved gate region; other site 205922003884 putative PBP binding loops; other site 205922003885 ABC-ATPase subunit interface; other site 205922003886 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922003887 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922003888 dimer interface [polypeptide binding]; other site 205922003889 conserved gate region; other site 205922003890 putative PBP binding loops; other site 205922003891 ABC-ATPase subunit interface; other site 205922003892 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 205922003893 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 205922003894 substrate binding pocket [chemical binding]; other site 205922003895 membrane-bound complex binding site; other site 205922003896 hinge residues; other site 205922003897 ATP-dependent DNA ligase; Validated; Region: PRK09247 205922003898 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 205922003899 active site 205922003900 DNA binding site [nucleotide binding] 205922003901 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 205922003902 DNA binding site [nucleotide binding] 205922003903 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 205922003904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922003905 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 205922003906 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 205922003907 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 205922003908 active site 205922003909 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 205922003910 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 205922003911 C-terminal domain interface [polypeptide binding]; other site 205922003912 GSH binding site (G-site) [chemical binding]; other site 205922003913 dimer interface [polypeptide binding]; other site 205922003914 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 205922003915 N-terminal domain interface [polypeptide binding]; other site 205922003916 putative dimer interface [polypeptide binding]; other site 205922003917 active site 205922003918 Isochorismatase family; Region: Isochorismatase; pfam00857 205922003919 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 205922003920 catalytic triad [active] 205922003921 conserved cis-peptide bond; other site 205922003922 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 205922003923 SEC-C motif; Region: SEC-C; pfam02810 205922003924 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 205922003925 Late embryogenesis abundant protein; Region: LEA_2; cl12118 205922003926 hypothetical protein; Provisional; Region: PRK00183 205922003927 SEC-C motif; Region: SEC-C; pfam02810 205922003928 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922003929 ligand binding site [chemical binding]; other site 205922003930 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922003931 ligand binding site [chemical binding]; other site 205922003932 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 205922003933 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 205922003934 Copper resistance protein D; Region: CopD; cl00563 205922003935 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 205922003936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922003937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922003938 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 205922003939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922003940 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922003941 ligand binding site [chemical binding]; other site 205922003942 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 205922003943 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205922003944 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 205922003945 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 205922003946 S-type Pyocin; Region: Pyocin_S; pfam06958 205922003947 Cytotoxic; Region: Cytotoxic; pfam09000 205922003948 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 205922003949 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 205922003950 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 205922003951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922003952 catalytic residue [active] 205922003953 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 205922003954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003955 Predicted membrane protein [Function unknown]; Region: COG3650 205922003956 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 205922003957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922003958 NAD(P) binding site [chemical binding]; other site 205922003959 active site 205922003960 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922003961 Helix-turn-helix domains; Region: HTH; cl00088 205922003962 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 205922003963 putative effector binding pocket; other site 205922003964 dimerization interface [polypeptide binding]; other site 205922003965 DoxX; Region: DoxX; cl00976 205922003966 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 205922003967 Protein of unknown function (DUF692); Region: DUF692; cl01263 205922003968 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 205922003969 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 205922003970 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 205922003971 Walker A/P-loop; other site 205922003972 ATP binding site [chemical binding]; other site 205922003973 Q-loop/lid; other site 205922003974 ABC transporter signature motif; other site 205922003975 Walker B; other site 205922003976 D-loop; other site 205922003977 H-loop/switch region; other site 205922003978 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 205922003979 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 205922003980 Walker A/P-loop; other site 205922003981 ATP binding site [chemical binding]; other site 205922003982 Q-loop/lid; other site 205922003983 ABC transporter signature motif; other site 205922003984 Walker B; other site 205922003985 D-loop; other site 205922003986 H-loop/switch region; other site 205922003987 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 205922003988 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 205922003989 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 205922003990 TM-ABC transporter signature motif; other site 205922003991 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 205922003992 TM-ABC transporter signature motif; other site 205922003993 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 205922003994 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 205922003995 dimerization interface [polypeptide binding]; other site 205922003996 ligand binding site [chemical binding]; other site 205922003997 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 205922003998 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 205922003999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922004000 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 205922004001 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 205922004002 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 205922004003 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 205922004004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922004005 metal binding site [ion binding]; metal-binding site 205922004006 active site 205922004007 I-site; other site 205922004008 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 205922004009 Flagellin N-methylase; Region: FliB; cl00497 205922004010 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004011 putative substrate translocation pore; other site 205922004012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922004013 ATP-dependent helicase HepA; Validated; Region: PRK04914 205922004014 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 205922004015 ATP binding site [chemical binding]; other site 205922004016 putative Mg++ binding site [ion binding]; other site 205922004017 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 205922004018 nucleotide binding region [chemical binding]; other site 205922004019 ATP-binding site [chemical binding]; other site 205922004020 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 205922004021 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 205922004022 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922004023 catalytic residue [active] 205922004024 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 205922004025 homotrimer interaction site [polypeptide binding]; other site 205922004026 putative active site [active] 205922004027 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922004028 Helix-turn-helix domains; Region: HTH; cl00088 205922004029 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 205922004030 dimerization interface [polypeptide binding]; other site 205922004031 substrate binding pocket [chemical binding]; other site 205922004032 Phosphate transporter family; Region: PHO4; cl00396 205922004033 Phosphate transporter family; Region: PHO4; cl00396 205922004034 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 205922004035 Helix-turn-helix domains; Region: HTH; cl00088 205922004036 Bacterial transcriptional regulator; Region: IclR; pfam01614 205922004037 benzoate transport; Region: 2A0115; TIGR00895 205922004038 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004039 putative substrate translocation pore; other site 205922004040 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004041 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922004042 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922004043 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 205922004044 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 205922004045 dimer interface [polypeptide binding]; other site 205922004046 active site 205922004047 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 205922004048 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 205922004049 heterodimer interface [polypeptide binding]; other site 205922004050 multimer interface [polypeptide binding]; other site 205922004051 active site 205922004052 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 205922004053 heterodimer interface [polypeptide binding]; other site 205922004054 active site 205922004055 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 205922004056 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004057 putative substrate translocation pore; other site 205922004058 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 205922004059 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 205922004060 tetramer interface [polypeptide binding]; other site 205922004061 active site 205922004062 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 205922004063 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922004064 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 205922004065 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 205922004066 S-adenosylmethionine binding site [chemical binding]; other site 205922004067 outer membrane porin, OprD family; Region: OprD; pfam03573 205922004068 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922004069 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 205922004070 Protein export membrane protein; Region: SecD_SecF; cl14618 205922004071 Protein export membrane protein; Region: SecD_SecF; cl14618 205922004072 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 205922004073 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922004074 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922004075 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 205922004076 Helix-turn-helix domains; Region: HTH; cl00088 205922004077 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 205922004078 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 205922004079 FMN binding site [chemical binding]; other site 205922004080 active site 205922004081 substrate binding site [chemical binding]; other site 205922004082 catalytic residue [active] 205922004083 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004084 putative substrate translocation pore; other site 205922004085 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922004086 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 205922004087 dimerization interface [polypeptide binding]; other site 205922004088 putative DNA binding site [nucleotide binding]; other site 205922004089 putative Zn2+ binding site [ion binding]; other site 205922004090 Protein of unknown function, DUF479; Region: DUF479; cl01203 205922004091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205922004092 putative acyl-acceptor binding pocket; other site 205922004093 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922004094 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922004095 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922004096 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 205922004097 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 205922004098 metal binding site [ion binding]; metal-binding site 205922004099 putative dimer interface [polypeptide binding]; other site 205922004100 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004101 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922004102 putative substrate translocation pore; other site 205922004103 amidase; Provisional; Region: PRK07486 205922004104 Amidase; Region: Amidase; cl11426 205922004105 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922004106 Helix-turn-helix domains; Region: HTH; cl00088 205922004107 YceI-like domain; Region: YceI; cl01001 205922004108 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 205922004109 putative active site [active] 205922004110 catalytic site [active] 205922004111 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 205922004112 PLD-like domain; Region: PLDc_2; pfam13091 205922004113 putative active site [active] 205922004114 catalytic site [active] 205922004115 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 205922004116 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 205922004117 Fibronectin type III-like domain; Region: Fn3-like; cl15273 205922004118 LemA family; Region: LemA; cl00742 205922004119 Repair protein; Region: Repair_PSII; cl01535 205922004120 Repair protein; Region: Repair_PSII; cl01535 205922004121 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922004122 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 205922004123 S-adenosylmethionine binding site [chemical binding]; other site 205922004124 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 205922004125 EamA-like transporter family; Region: EamA; cl01037 205922004126 EamA-like transporter family; Region: EamA; cl01037 205922004127 intracellular protease, PfpI family; Region: PfpI; TIGR01382 205922004128 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 205922004129 conserved cys residue [active] 205922004130 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 205922004131 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 205922004132 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 205922004133 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 205922004134 inhibitor site; inhibition site 205922004135 active site 205922004136 dimer interface [polypeptide binding]; other site 205922004137 catalytic residue [active] 205922004138 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 205922004139 intersubunit interface [polypeptide binding]; other site 205922004140 active site 205922004141 Zn2+ binding site [ion binding]; other site 205922004142 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 205922004143 non-specific DNA binding site [nucleotide binding]; other site 205922004144 salt bridge; other site 205922004145 sequence-specific DNA binding site [nucleotide binding]; other site 205922004146 Cupin domain; Region: Cupin_2; cl09118 205922004147 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 205922004148 putative alcohol dehydrogenase; Provisional; Region: PRK09860 205922004149 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 205922004150 dimer interface [polypeptide binding]; other site 205922004151 active site 205922004152 metal binding site [ion binding]; metal-binding site 205922004153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004154 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 205922004155 putative substrate translocation pore; other site 205922004156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004157 Helix-turn-helix domains; Region: HTH; cl00088 205922004158 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 205922004159 putative dimerization interface [polypeptide binding]; other site 205922004160 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 205922004161 CoA-transferase family III; Region: CoA_transf_3; pfam02515 205922004162 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 205922004163 active site 205922004164 catalytic residues [active] 205922004165 metal binding site [ion binding]; metal-binding site 205922004166 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 205922004167 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004168 putative substrate translocation pore; other site 205922004169 Protein of unknown function, DUF606; Region: DUF606; cl01273 205922004170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004171 Helix-turn-helix domains; Region: HTH; cl00088 205922004172 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 205922004173 putative substrate binding pocket [chemical binding]; other site 205922004174 putative dimerization interface [polypeptide binding]; other site 205922004175 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 205922004176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922004177 active site 205922004178 metal binding site [ion binding]; metal-binding site 205922004179 LysE type translocator; Region: LysE; cl00565 205922004180 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 205922004181 PAS domain; Region: PAS_9; pfam13426 205922004182 putative active site [active] 205922004183 heme pocket [chemical binding]; other site 205922004184 GAF domain; Region: GAF_2; pfam13185 205922004185 GAF domain; Region: GAF; cl15785 205922004186 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922004187 metal binding site [ion binding]; metal-binding site 205922004188 active site 205922004189 I-site; other site 205922004190 Domain of unknown function (DUF305); Region: DUF305; cl15795 205922004191 Low affinity iron permease; Region: Iron_permease; cl12096 205922004192 Uncharacterized conserved protein [Function unknown]; Region: COG4748 205922004193 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 205922004194 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 205922004195 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 205922004196 S-adenosylmethionine binding site [chemical binding]; other site 205922004197 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922004198 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 205922004199 S-adenosylmethionine binding site [chemical binding]; other site 205922004200 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 205922004201 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 205922004202 Zeta toxin; Region: Zeta_toxin; pfam06414 205922004203 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922004204 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 205922004205 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 205922004206 RNA binding surface [nucleotide binding]; other site 205922004207 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 205922004208 active site 205922004209 uracil binding [chemical binding]; other site 205922004210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922004211 metal binding site [ion binding]; metal-binding site 205922004212 active site 205922004213 I-site; other site 205922004214 allophanate hydrolase; Provisional; Region: PRK08186 205922004215 Amidase; Region: Amidase; cl11426 205922004216 urea carboxylase; Region: urea_carbox; TIGR02712 205922004217 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922004218 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922004219 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 205922004220 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 205922004221 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 205922004222 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 205922004223 carboxyltransferase (CT) interaction site; other site 205922004224 biotinylation site [posttranslational modification]; other site 205922004225 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 205922004226 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 205922004227 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 205922004228 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 205922004229 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 205922004230 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922004231 Walker A/P-loop; other site 205922004232 ATP binding site [chemical binding]; other site 205922004233 Q-loop/lid; other site 205922004234 ABC transporter signature motif; other site 205922004235 Walker B; other site 205922004236 D-loop; other site 205922004237 H-loop/switch region; other site 205922004238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922004239 NMT1-like family; Region: NMT1_2; cl15260 205922004240 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922004241 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 205922004242 putative transposase OrfB; Reviewed; Region: PHA02517 205922004243 Integrase core domain; Region: rve; cl01316 205922004244 Integrase core domain; Region: rve_3; cl15866 205922004245 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 205922004246 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 205922004247 substrate binding site [chemical binding]; other site 205922004248 oxyanion hole (OAH) forming residues; other site 205922004249 trimer interface [polypeptide binding]; other site 205922004250 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 205922004251 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 205922004252 ligand binding site [chemical binding]; other site 205922004253 active site 205922004254 UGI interface [polypeptide binding]; other site 205922004255 catalytic site [active] 205922004256 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 205922004257 Putative ammonia monooxygenase; Region: AmoA; pfam05145 205922004258 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 205922004259 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 205922004260 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 205922004261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 205922004262 NMT1-like family; Region: NMT1_2; cl15260 205922004263 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 205922004264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922004265 active site 205922004266 phosphorylation site [posttranslational modification] 205922004267 intermolecular recognition site; other site 205922004268 dimerization interface [polypeptide binding]; other site 205922004269 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 205922004270 DNA binding site [nucleotide binding] 205922004271 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 205922004272 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922004273 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 205922004274 dimer interface [polypeptide binding]; other site 205922004275 phosphorylation site [posttranslational modification] 205922004276 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922004277 ATP binding site [chemical binding]; other site 205922004278 Mg2+ binding site [ion binding]; other site 205922004279 G-X-G motif; other site 205922004280 HDOD domain; Region: HDOD; pfam08668 205922004281 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 205922004282 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 205922004283 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 205922004284 L-aspartate oxidase; Provisional; Region: PRK09077 205922004285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922004286 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 205922004287 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 205922004288 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922004289 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 205922004290 DNA binding residues [nucleotide binding] 205922004291 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 205922004292 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 205922004293 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 205922004294 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 205922004295 MucB/RseB family; Region: MucB_RseB; pfam03888 205922004296 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 205922004297 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 205922004298 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 205922004299 protein binding site [polypeptide binding]; other site 205922004300 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 205922004301 protein binding site [polypeptide binding]; other site 205922004302 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 205922004303 Peptidase family M48; Region: Peptidase_M48; cl12018 205922004304 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 205922004305 binding surface 205922004306 TPR motif; other site 205922004307 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 205922004308 CPxP motif; other site 205922004309 Domain of unknown function DUF20; Region: UPF0118; pfam01594 205922004310 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 205922004311 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 205922004312 catalytic triad [active] 205922004313 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 205922004314 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 205922004315 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 205922004316 dihydrodipicolinate synthase; Region: dapA; TIGR00674 205922004317 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 205922004318 dimer interface [polypeptide binding]; other site 205922004319 active site 205922004320 catalytic residue [active] 205922004321 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 205922004322 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 205922004323 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922004324 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 205922004325 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 205922004326 ATP binding site [chemical binding]; other site 205922004327 active site 205922004328 substrate binding site [chemical binding]; other site 205922004329 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 205922004330 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 205922004331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922004332 active site 205922004333 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 205922004334 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 205922004335 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 205922004336 Ligand binding site; other site 205922004337 Putative Catalytic site; other site 205922004338 DXD motif; other site 205922004339 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922004340 GtrA-like protein; Region: GtrA; cl00971 205922004341 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004342 Helix-turn-helix domains; Region: HTH; cl00088 205922004343 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 205922004344 putative substrate binding pocket [chemical binding]; other site 205922004345 putative dimerization interface [polypeptide binding]; other site 205922004346 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 205922004347 putative substrate binding pocket [chemical binding]; other site 205922004348 trimer interface [polypeptide binding]; other site 205922004349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004350 Helix-turn-helix domains; Region: HTH; cl00088 205922004351 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 205922004352 substrate binding pocket [chemical binding]; other site 205922004353 dimerization interface [polypeptide binding]; other site 205922004354 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 205922004355 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 205922004356 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 205922004357 Sulfatase; Region: Sulfatase; cl10460 205922004358 ribonuclease D; Region: rnd; TIGR01388 205922004359 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 205922004360 catalytic site [active] 205922004361 putative active site [active] 205922004362 putative substrate binding site [chemical binding]; other site 205922004363 HRDC domain; Region: HRDC; cl02578 205922004364 YcgL domain; Region: YcgL; cl01189 205922004365 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 205922004366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922004367 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 205922004368 putative FMN binding site [chemical binding]; other site 205922004369 Flagellin N-methylase; Region: FliB; cl00497 205922004370 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 205922004371 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 205922004372 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 205922004373 hypothetical protein; Provisional; Region: PRK11295 205922004374 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 205922004375 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922004376 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 205922004377 ligand binding site [chemical binding]; other site 205922004378 flexible hinge region; other site 205922004379 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 205922004380 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922004381 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 205922004382 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 205922004383 putative active site [active] 205922004384 putative dimer interface [polypeptide binding]; other site 205922004385 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 205922004386 Helix-turn-helix domains; Region: HTH; cl00088 205922004387 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 205922004388 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 205922004389 dimerization interface [polypeptide binding]; other site 205922004390 benzoate transport; Region: 2A0115; TIGR00895 205922004391 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004392 putative substrate translocation pore; other site 205922004393 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 205922004394 putative active site [active] 205922004395 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 205922004396 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 205922004397 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 205922004398 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922004399 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 205922004400 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 205922004401 Walker A motif; other site 205922004402 ATP binding site [chemical binding]; other site 205922004403 Walker B motif; other site 205922004404 arginine finger; other site 205922004405 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 205922004406 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 205922004407 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922004408 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 205922004409 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 205922004410 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 205922004411 dimer interface [polypeptide binding]; other site 205922004412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922004413 catalytic residue [active] 205922004414 Cupin domain; Region: Cupin_2; cl09118 205922004415 EamA-like transporter family; Region: EamA; cl01037 205922004416 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 205922004417 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922004418 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922004419 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922004420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922004421 dimer interface [polypeptide binding]; other site 205922004422 putative CheW interface [polypeptide binding]; other site 205922004423 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 205922004424 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 205922004425 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 205922004426 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 205922004427 ATP binding site [chemical binding]; other site 205922004428 putative Mg++ binding site [ion binding]; other site 205922004429 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 205922004430 nucleotide binding region [chemical binding]; other site 205922004431 ATP-binding site [chemical binding]; other site 205922004432 Helicase associated domain (HA2); Region: HA2; cl04503 205922004433 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 205922004434 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 205922004435 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 205922004436 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 205922004437 dimer interface [polypeptide binding]; other site 205922004438 active site 205922004439 CoA binding pocket [chemical binding]; other site 205922004440 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 205922004441 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922004442 Putative zinc-finger; Region: zf-HC2; cl15806 205922004443 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 205922004444 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922004445 Protein of unknown function, DUF482; Region: DUF482; pfam04339 205922004446 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 205922004447 amphipathic channel; other site 205922004448 Asn-Pro-Ala signature motifs; other site 205922004449 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 205922004450 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922004451 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 205922004452 Walker A/P-loop; other site 205922004453 ATP binding site [chemical binding]; other site 205922004454 Q-loop/lid; other site 205922004455 ABC transporter signature motif; other site 205922004456 Walker B; other site 205922004457 D-loop; other site 205922004458 H-loop/switch region; other site 205922004459 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 205922004460 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 205922004461 substrate binding site [chemical binding]; other site 205922004462 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922004463 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922004464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004465 Helix-turn-helix domains; Region: HTH; cl00088 205922004466 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 205922004467 dimerization interface [polypeptide binding]; other site 205922004468 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922004469 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 205922004470 Helix-turn-helix domains; Region: HTH; cl00088 205922004471 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922004472 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 205922004473 putative effector binding pocket; other site 205922004474 dimerization interface [polypeptide binding]; other site 205922004475 Isochorismatase family; Region: Isochorismatase; pfam00857 205922004476 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 205922004477 catalytic triad [active] 205922004478 dimer interface [polypeptide binding]; other site 205922004479 conserved cis-peptide bond; other site 205922004480 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922004481 helicase 45; Provisional; Region: PTZ00424 205922004482 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 205922004483 ATP binding site [chemical binding]; other site 205922004484 Mg++ binding site [ion binding]; other site 205922004485 motif III; other site 205922004486 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 205922004487 nucleotide binding region [chemical binding]; other site 205922004488 ATP-binding site [chemical binding]; other site 205922004489 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 205922004490 putative active site [active] 205922004491 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922004492 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 205922004493 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 205922004494 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 205922004495 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 205922004496 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 205922004497 EamA-like transporter family; Region: EamA; cl01037 205922004498 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 205922004499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004500 Helix-turn-helix domains; Region: HTH; cl00088 205922004501 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 205922004502 putative dimerization interface [polypeptide binding]; other site 205922004503 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922004504 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 205922004505 Na binding site [ion binding]; other site 205922004506 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922004507 Na binding site [ion binding]; other site 205922004508 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 205922004509 Arginase family; Region: Arginase; cl00306 205922004510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922004511 Helix-turn-helix domains; Region: HTH; cl00088 205922004512 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 205922004513 dimerization interface [polypeptide binding]; other site 205922004514 DTW domain; Region: DTW; cl01221 205922004515 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 205922004516 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922004517 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922004518 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 205922004519 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 205922004520 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922004521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922004522 Walker A/P-loop; other site 205922004523 ATP binding site [chemical binding]; other site 205922004524 Q-loop/lid; other site 205922004525 ABC transporter signature motif; other site 205922004526 Walker B; other site 205922004527 D-loop; other site 205922004528 H-loop/switch region; other site 205922004529 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 205922004530 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 205922004531 VCBS repeat; Region: VCBS_repeat; TIGR01965 205922004532 VCBS repeat; Region: VCBS_repeat; TIGR01965 205922004533 VCBS repeat; Region: VCBS_repeat; TIGR01965 205922004534 VCBS repeat; Region: VCBS_repeat; TIGR01965 205922004535 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 205922004536 VCBS repeat; Region: VCBS_repeat; TIGR01965 205922004537 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 205922004538 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 205922004539 metal ion-dependent adhesion site (MIDAS); other site 205922004540 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922004541 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 205922004542 Protein of unknown function (DUF454); Region: DUF454; cl01063 205922004543 Protein of unknown function (DUF454); Region: DUF454; cl01063 205922004544 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 205922004545 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 205922004546 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 205922004547 ATP binding site [chemical binding]; other site 205922004548 putative Mg++ binding site [ion binding]; other site 205922004549 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 205922004550 nucleotide binding region [chemical binding]; other site 205922004551 ATP-binding site [chemical binding]; other site 205922004552 RQC domain; Region: RQC; cl09632 205922004553 HRDC domain; Region: HRDC; cl02578 205922004554 transcriptional regulator SlyA; Provisional; Region: PRK03573 205922004555 Helix-turn-helix domains; Region: HTH; cl00088 205922004556 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 205922004557 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 205922004558 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 205922004559 hypothetical protein; Provisional; Region: PRK10279 205922004560 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 205922004561 active site 205922004562 nucleophile elbow; other site 205922004563 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 205922004564 Surface antigen; Region: Bac_surface_Ag; cl03097 205922004565 Rdx family; Region: Rdx; cl01407 205922004566 EamA-like transporter family; Region: EamA; cl01037 205922004567 EamA-like transporter family; Region: EamA; cl01037 205922004568 Cupin domain; Region: Cupin_2; cl09118 205922004569 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922004570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922004571 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 205922004572 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 205922004573 putative active site [active] 205922004574 putative metal binding site [ion binding]; other site 205922004575 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922004576 Protein of unknown function (DUF962); Region: DUF962; cl01879 205922004577 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922004578 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922004579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922004580 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 205922004581 Cation transport protein; Region: TrkH; cl10514 205922004582 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 205922004583 putative FMN binding site [chemical binding]; other site 205922004584 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922004585 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922004586 ATP binding site [chemical binding]; other site 205922004587 Mg2+ binding site [ion binding]; other site 205922004588 G-X-G motif; other site 205922004589 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922004590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922004591 active site 205922004592 phosphorylation site [posttranslational modification] 205922004593 intermolecular recognition site; other site 205922004594 dimerization interface [polypeptide binding]; other site 205922004595 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 205922004596 DNA binding site [nucleotide binding] 205922004597 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 205922004598 YCII-related domain; Region: YCII; cl00999 205922004599 Intracellular septation protein A; Region: IspA; cl01098 205922004600 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 205922004601 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 205922004602 ScpA/B protein; Region: ScpA_ScpB; cl00598 205922004603 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 205922004604 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 205922004605 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 205922004606 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 205922004607 RNA binding surface [nucleotide binding]; other site 205922004608 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 205922004609 probable active site [active] 205922004610 aromatic amino acid transporter; Provisional; Region: PRK10238 205922004611 RF-1 domain; Region: RF-1; cl02875 205922004612 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004613 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922004614 putative substrate translocation pore; other site 205922004615 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 205922004616 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 205922004617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922004618 homodimer interface [polypeptide binding]; other site 205922004619 catalytic residue [active] 205922004620 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 205922004621 aromatic arch; other site 205922004622 DCoH dimer interaction site [polypeptide binding]; other site 205922004623 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 205922004624 DCoH tetramer interaction site [polypeptide binding]; other site 205922004625 substrate binding site [chemical binding]; other site 205922004626 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 205922004627 cofactor binding site; other site 205922004628 metal binding site [ion binding]; metal-binding site 205922004629 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 205922004630 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 205922004631 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 205922004632 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 205922004633 Walker A motif; other site 205922004634 ATP binding site [chemical binding]; other site 205922004635 Walker B motif; other site 205922004636 arginine finger; other site 205922004637 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 205922004638 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 205922004639 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 205922004640 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 205922004641 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 205922004642 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 205922004643 Flagellar L-ring protein; Region: FlgH; cl00905 205922004644 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 205922004645 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 205922004646 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 205922004647 Rod binding protein; Region: Rod-binding; cl01626 205922004648 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 205922004649 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 205922004650 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 205922004651 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 205922004652 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 205922004653 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 205922004654 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 205922004655 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 205922004656 active site 205922004657 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 205922004658 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 205922004659 Probable Catalytic site; other site 205922004660 metal-binding site 205922004661 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 205922004662 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922004663 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 205922004664 substrate binding site; other site 205922004665 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 205922004666 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 205922004667 NAD binding site [chemical binding]; other site 205922004668 homotetramer interface [polypeptide binding]; other site 205922004669 homodimer interface [polypeptide binding]; other site 205922004670 substrate binding site [chemical binding]; other site 205922004671 active site 205922004672 Cupin domain; Region: Cupin_2; cl09118 205922004673 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 205922004674 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922004675 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 205922004676 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 205922004677 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 205922004678 inhibitor-cofactor binding pocket; inhibition site 205922004679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922004680 catalytic residue [active] 205922004681 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 205922004682 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 205922004683 putative trimer interface [polypeptide binding]; other site 205922004684 putative CoA binding site [chemical binding]; other site 205922004685 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922004686 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 205922004687 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 205922004688 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 205922004689 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 205922004690 active site 205922004691 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 205922004692 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 205922004693 NAD(P) binding site [chemical binding]; other site 205922004694 homodimer interface [polypeptide binding]; other site 205922004695 substrate binding site [chemical binding]; other site 205922004696 active site 205922004697 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 205922004698 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 205922004699 inhibitor-cofactor binding pocket; inhibition site 205922004700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922004701 catalytic residue [active] 205922004702 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922004703 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 205922004704 ligand binding site; other site 205922004705 tetramer interface; other site 205922004706 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 205922004707 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 205922004708 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 205922004709 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922004710 pseudaminic acid synthase; Region: PseI; TIGR03586 205922004711 NeuB family; Region: NeuB; cl00496 205922004712 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 205922004713 NeuB binding interface [polypeptide binding]; other site 205922004714 putative substrate binding site [chemical binding]; other site 205922004715 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 205922004716 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 205922004717 dimer interface [polypeptide binding]; other site 205922004718 active site 205922004719 CoA binding pocket [chemical binding]; other site 205922004720 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 205922004721 flagellin; Provisional; Region: PRK12802 205922004722 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 205922004723 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 205922004724 FlaG protein; Region: FlaG; cl00591 205922004725 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 205922004726 flagellar capping protein; Reviewed; Region: fliD; PRK08032 205922004727 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 205922004728 Flagellar protein FliS; Region: FliS; cl00654 205922004729 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922004730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 205922004731 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 205922004732 Walker A motif; other site 205922004733 ATP binding site [chemical binding]; other site 205922004734 Walker B motif; other site 205922004735 arginine finger; other site 205922004736 Helix-turn-helix domains; Region: HTH; cl00088 205922004737 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 205922004738 dimer interface [polypeptide binding]; other site 205922004739 phosphorylation site [posttranslational modification] 205922004740 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922004741 ATP binding site [chemical binding]; other site 205922004742 Mg2+ binding site [ion binding]; other site 205922004743 G-X-G motif; other site 205922004744 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922004745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922004746 active site 205922004747 phosphorylation site [posttranslational modification] 205922004748 intermolecular recognition site; other site 205922004749 dimerization interface [polypeptide binding]; other site 205922004750 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 205922004751 Walker A motif; other site 205922004752 ATP binding site [chemical binding]; other site 205922004753 Walker B motif; other site 205922004754 arginine finger; other site 205922004755 Helix-turn-helix domains; Region: HTH; cl00088 205922004756 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 205922004757 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 205922004758 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 205922004759 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 205922004760 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 205922004761 MgtE intracellular N domain; Region: MgtE_N; cl15244 205922004762 FliG C-terminal domain; Region: FliG_C; pfam01706 205922004763 flagellar assembly protein H; Validated; Region: fliH; PRK05687 205922004764 Flagellar assembly protein FliH; Region: FliH; pfam02108 205922004765 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 205922004766 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 205922004767 Walker A motif/ATP binding site; other site 205922004768 Walker B motif; other site 205922004769 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 205922004770 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 205922004771 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 205922004772 anti sigma factor interaction site; other site 205922004773 regulatory phosphorylation site [posttranslational modification]; other site 205922004774 Response regulator receiver domain; Region: Response_reg; pfam00072 205922004775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922004776 active site 205922004777 phosphorylation site [posttranslational modification] 205922004778 intermolecular recognition site; other site 205922004779 dimerization interface [polypeptide binding]; other site 205922004780 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 205922004781 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 205922004782 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 205922004783 putative binding surface; other site 205922004784 active site 205922004785 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 205922004786 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 205922004787 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 205922004788 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 205922004789 flagellar motor switch protein; Validated; Region: fliN; PRK05698 205922004790 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 205922004791 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 205922004792 FliP family; Region: FliP; cl00593 205922004793 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 205922004794 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 205922004795 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 205922004796 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 205922004797 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 205922004798 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 205922004799 FHIPEP family; Region: FHIPEP; pfam00771 205922004800 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 205922004801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922004802 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 205922004803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922004804 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 205922004805 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 205922004806 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922004807 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 205922004808 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 205922004809 DNA binding residues [nucleotide binding] 205922004810 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 205922004811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922004812 active site 205922004813 phosphorylation site [posttranslational modification] 205922004814 intermolecular recognition site; other site 205922004815 dimerization interface [polypeptide binding]; other site 205922004816 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 205922004817 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 205922004818 putative binding surface; other site 205922004819 active site 205922004820 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 205922004821 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922004822 ATP binding site [chemical binding]; other site 205922004823 Mg2+ binding site [ion binding]; other site 205922004824 G-X-G motif; other site 205922004825 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 205922004826 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 205922004827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922004828 active site 205922004829 phosphorylation site [posttranslational modification] 205922004830 intermolecular recognition site; other site 205922004831 dimerization interface [polypeptide binding]; other site 205922004832 CheB methylesterase; Region: CheB_methylest; pfam01339 205922004833 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 205922004834 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922004835 flagellar motor protein MotD; Reviewed; Region: PRK09038 205922004836 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 205922004837 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922004838 ligand binding site [chemical binding]; other site 205922004839 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205922004840 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 205922004841 P-loop; other site 205922004842 Magnesium ion binding site [ion binding]; other site 205922004843 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 205922004844 Magnesium ion binding site [ion binding]; other site 205922004845 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 205922004846 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 205922004847 putative CheA interaction surface; other site 205922004848 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 205922004849 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 205922004850 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 205922004851 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 205922004852 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 205922004853 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 205922004854 Walker A/P-loop; other site 205922004855 ATP binding site [chemical binding]; other site 205922004856 Q-loop/lid; other site 205922004857 ABC transporter signature motif; other site 205922004858 Walker B; other site 205922004859 D-loop; other site 205922004860 H-loop/switch region; other site 205922004861 CcmB protein; Region: CcmB; cl01016 205922004862 CcmB protein; Region: CcmB; cl01016 205922004863 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 205922004864 Heme exporter protein D (CcmD); Region: CcmD; cl11475 205922004865 CcmE; Region: CcmE; cl00994 205922004866 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 205922004867 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 205922004868 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 205922004869 catalytic residues [active] 205922004870 central insert; other site 205922004871 Cytochrome C biogenesis protein; Region: CcmH; cl01179 205922004872 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 205922004873 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 205922004874 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 205922004875 binding surface 205922004876 TPR motif; other site 205922004877 YcfA-like protein; Region: YcfA; cl00752 205922004878 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 205922004879 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 205922004880 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 205922004881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922004882 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 205922004883 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 205922004884 Ion transport protein; Region: Ion_trans; pfam00520 205922004885 Ion channel; Region: Ion_trans_2; cl11596 205922004886 Urea transporter; Region: UT; cl01829 205922004887 pyruvate kinase; Provisional; Region: PRK06247 205922004888 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 205922004889 domain interfaces; other site 205922004890 active site 205922004891 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 205922004892 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 205922004893 MOFRL family; Region: MOFRL; pfam05161 205922004894 tartronate semialdehyde reductase; Provisional; Region: PRK15059 205922004895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922004896 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 205922004897 glyoxylate carboligase; Provisional; Region: PRK11269 205922004898 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 205922004899 PYR/PP interface [polypeptide binding]; other site 205922004900 dimer interface [polypeptide binding]; other site 205922004901 TPP binding site [chemical binding]; other site 205922004902 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 205922004903 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 205922004904 TPP-binding site [chemical binding]; other site 205922004905 Domain of unknown function (DUF336); Region: DUF336; cl01249 205922004906 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 205922004907 Helix-turn-helix domains; Region: HTH; cl00088 205922004908 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 205922004909 Protein of unknown function (DUF808); Region: DUF808; cl01002 205922004910 VacJ like lipoprotein; Region: VacJ; cl01073 205922004911 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 205922004912 NMT1-like family; Region: NMT1_2; cl15260 205922004913 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 205922004914 Protein of unknown function, DUF485; Region: DUF485; cl01231 205922004915 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 205922004916 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 205922004917 Na binding site [ion binding]; other site 205922004918 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 205922004919 dimer interface [polypeptide binding]; other site 205922004920 Citrate synthase; Region: Citrate_synt; pfam00285 205922004921 active site 205922004922 citrylCoA binding site [chemical binding]; other site 205922004923 NADH binding [chemical binding]; other site 205922004924 cationic pore residues; other site 205922004925 oxalacetate/citrate binding site [chemical binding]; other site 205922004926 coenzyme A binding site [chemical binding]; other site 205922004927 catalytic triad [active] 205922004928 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 205922004929 Iron-sulfur protein interface; other site 205922004930 proximal quinone binding site [chemical binding]; other site 205922004931 SdhD (CybS) interface [polypeptide binding]; other site 205922004932 proximal heme binding site [chemical binding]; other site 205922004933 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 205922004934 SdhC subunit interface [polypeptide binding]; other site 205922004935 proximal heme binding site [chemical binding]; other site 205922004936 cardiolipin binding site; other site 205922004937 Iron-sulfur protein interface; other site 205922004938 proximal quinone binding site [chemical binding]; other site 205922004939 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 205922004940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922004941 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 205922004942 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 205922004943 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 205922004944 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 205922004945 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 205922004946 TPP-binding site [chemical binding]; other site 205922004947 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 205922004948 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 205922004949 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 205922004950 E3 interaction surface; other site 205922004951 lipoyl attachment site [posttranslational modification]; other site 205922004952 e3 binding domain; Region: E3_binding; pfam02817 205922004953 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 205922004954 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 205922004955 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 205922004956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922004957 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205922004958 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 205922004959 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922004960 CoA-ligase; Region: Ligase_CoA; cl02894 205922004961 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 205922004962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922004963 CoA-ligase; Region: Ligase_CoA; cl02894 205922004964 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 205922004965 Protein of unknown function, DUF599; Region: DUF599; cl01575 205922004966 MAPEG family; Region: MAPEG; cl09190 205922004967 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 205922004968 CoenzymeA binding site [chemical binding]; other site 205922004969 subunit interaction site [polypeptide binding]; other site 205922004970 PHB binding site; other site 205922004971 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 205922004972 CoenzymeA binding site [chemical binding]; other site 205922004973 subunit interaction site [polypeptide binding]; other site 205922004974 PHB binding site; other site 205922004975 heat shock protein 90; Provisional; Region: PRK05218 205922004976 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922004977 ATP binding site [chemical binding]; other site 205922004978 Mg2+ binding site [ion binding]; other site 205922004979 G-X-G motif; other site 205922004980 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 205922004981 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922004982 Pirin-related protein [General function prediction only]; Region: COG1741 205922004983 Cupin domain; Region: Cupin_2; cl09118 205922004984 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 205922004985 OsmC-like protein; Region: OsmC; cl00767 205922004986 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 205922004987 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922004988 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922004989 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922004990 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922004991 dimer interface [polypeptide binding]; other site 205922004992 putative CheW interface [polypeptide binding]; other site 205922004993 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 205922004994 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 205922004995 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 205922004996 active site 205922004997 substrate binding site [chemical binding]; other site 205922004998 cosubstrate binding site; other site 205922004999 catalytic site [active] 205922005000 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 205922005001 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 205922005002 dimerization interface [polypeptide binding]; other site 205922005003 putative ATP binding site [chemical binding]; other site 205922005004 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 205922005005 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 205922005006 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 205922005007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005008 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 205922005009 NlpC/P60 family; Region: NLPC_P60; cl11438 205922005010 NlpC/P60 family; Region: NLPC_P60; cl11438 205922005011 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 205922005012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005013 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 205922005014 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 205922005015 Walker A motif; other site 205922005016 homodimer interface [polypeptide binding]; other site 205922005017 ATP binding site [chemical binding]; other site 205922005018 hydroxycobalamin binding site [chemical binding]; other site 205922005019 Walker B motif; other site 205922005020 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 205922005021 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 205922005022 catalytic triad [active] 205922005023 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 205922005024 putative FMN binding site [chemical binding]; other site 205922005025 CobD/Cbib protein; Region: CobD_Cbib; cl00561 205922005026 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 205922005027 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 205922005028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922005029 homodimer interface [polypeptide binding]; other site 205922005030 catalytic residue [active] 205922005031 cobyric acid synthase; Provisional; Region: PRK00784 205922005032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005034 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 205922005035 catalytic triad [active] 205922005036 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 205922005037 homotrimer interface [polypeptide binding]; other site 205922005038 Walker A motif; other site 205922005039 GTP binding site [chemical binding]; other site 205922005040 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 205922005041 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 205922005042 putative dimer interface [polypeptide binding]; other site 205922005043 active site pocket [active] 205922005044 putative cataytic base [active] 205922005045 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 205922005046 catalytic core [active] 205922005047 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 205922005048 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922005049 Helix-turn-helix domains; Region: HTH; cl00088 205922005050 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005051 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922005052 putative substrate translocation pore; other site 205922005053 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 205922005054 catalytic residues [active] 205922005055 dimer interface [polypeptide binding]; other site 205922005056 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922005057 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 205922005058 RmuC family; Region: RmuC; pfam02646 205922005059 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922005060 Na binding site [ion binding]; other site 205922005061 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 205922005062 PAS fold; Region: PAS_7; pfam12860 205922005063 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922005064 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 205922005065 dimer interface [polypeptide binding]; other site 205922005066 phosphorylation site [posttranslational modification] 205922005067 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922005068 ATP binding site [chemical binding]; other site 205922005069 Mg2+ binding site [ion binding]; other site 205922005070 G-X-G motif; other site 205922005071 Response regulator receiver domain; Region: Response_reg; pfam00072 205922005072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922005073 active site 205922005074 phosphorylation site [posttranslational modification] 205922005075 intermolecular recognition site; other site 205922005076 dimerization interface [polypeptide binding]; other site 205922005077 Helix-turn-helix domains; Region: HTH; cl00088 205922005078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005079 Cupin domain; Region: Cupin_2; cl09118 205922005080 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 205922005081 gating phenylalanine in ion channel; other site 205922005082 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005083 putative substrate translocation pore; other site 205922005084 H+ Antiporter protein; Region: 2A0121; TIGR00900 205922005085 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205922005086 putative acyl-acceptor binding pocket; other site 205922005087 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 205922005088 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 205922005089 Membrane transport protein; Region: Mem_trans; cl09117 205922005090 Putative exonuclease, RdgC; Region: RdgC; cl01122 205922005091 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 205922005092 putative heme binding pocket [chemical binding]; other site 205922005093 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 205922005094 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 205922005095 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 205922005096 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 205922005097 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 205922005098 non-specific DNA binding site [nucleotide binding]; other site 205922005099 salt bridge; other site 205922005100 sequence-specific DNA binding site [nucleotide binding]; other site 205922005101 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922005102 RHS Repeat; Region: RHS_repeat; cl11982 205922005103 RHS Repeat; Region: RHS_repeat; cl11982 205922005104 RHS Repeat; Region: RHS_repeat; cl11982 205922005105 RHS Repeat; Region: RHS_repeat; cl11982 205922005106 RHS Repeat; Region: RHS_repeat; cl11982 205922005107 RHS Repeat; Region: RHS_repeat; cl11982 205922005108 RHS Repeat; Region: RHS_repeat; cl11982 205922005109 RHS Repeat; Region: RHS_repeat; cl11982 205922005110 RHS Repeat; Region: RHS_repeat; cl11982 205922005111 RHS protein; Region: RHS; pfam03527 205922005112 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922005113 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 205922005114 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 205922005115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922005116 metal binding site [ion binding]; metal-binding site 205922005117 active site 205922005118 I-site; other site 205922005119 carboxy-terminal protease; Provisional; Region: PRK11186 205922005120 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 205922005121 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 205922005122 protein binding site [polypeptide binding]; other site 205922005123 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 205922005124 Catalytic dyad [active] 205922005125 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 205922005126 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 205922005127 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 205922005128 NAD(P) binding site [chemical binding]; other site 205922005129 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 205922005130 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922005131 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922005132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005133 Walker A/P-loop; other site 205922005134 ATP binding site [chemical binding]; other site 205922005135 Q-loop/lid; other site 205922005136 ABC transporter signature motif; other site 205922005137 Walker B; other site 205922005138 D-loop; other site 205922005139 H-loop/switch region; other site 205922005140 TOBE domain; Region: TOBE_2; cl01440 205922005141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922005142 dimer interface [polypeptide binding]; other site 205922005143 conserved gate region; other site 205922005144 putative PBP binding loops; other site 205922005145 ABC-ATPase subunit interface; other site 205922005146 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922005147 dimer interface [polypeptide binding]; other site 205922005148 conserved gate region; other site 205922005149 putative PBP binding loops; other site 205922005150 ABC-ATPase subunit interface; other site 205922005151 Sulfatase; Region: Sulfatase; cl10460 205922005152 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 205922005153 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 205922005154 transcriptional regulator protein; Region: phnR; TIGR03337 205922005155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922005156 DNA-binding site [nucleotide binding]; DNA binding site 205922005157 UTRA domain; Region: UTRA; cl01230 205922005158 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 205922005159 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922005160 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 205922005161 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 205922005162 active site 205922005163 metal binding site [ion binding]; metal-binding site 205922005164 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 205922005165 active site 205922005166 Septum formation topological specificity factor MinE; Region: MinE; cl00538 205922005167 cell division inhibitor MinD; Provisional; Region: PRK10818 205922005168 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 205922005169 Switch I; other site 205922005170 Switch II; other site 205922005171 septum formation inhibitor; Reviewed; Region: minC; PRK00339 205922005172 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 205922005173 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 205922005174 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 205922005175 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 205922005176 putative acyl-acceptor binding pocket; other site 205922005177 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 205922005178 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 205922005179 active site 205922005180 nucleophile elbow; other site 205922005181 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 205922005182 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 205922005183 xanthine permease; Region: pbuX; TIGR03173 205922005184 Predicted membrane protein [Function unknown]; Region: COG3748 205922005185 Protein of unknown function (DUF989); Region: DUF989; pfam06181 205922005186 Cytochrome c; Region: Cytochrom_C; cl11414 205922005187 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 205922005188 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 205922005189 allantoicase; Provisional; Region: PRK13257 205922005190 Allantoicase repeat; Region: Allantoicase; pfam03561 205922005191 Allantoicase repeat; Region: Allantoicase; pfam03561 205922005192 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 205922005193 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 205922005194 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 205922005195 active site 205922005196 catalytic site [active] 205922005197 tetramer interface [polypeptide binding]; other site 205922005198 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 205922005199 active site 205922005200 homotetramer interface [polypeptide binding]; other site 205922005201 LysE type translocator; Region: LysE; cl00565 205922005202 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 205922005203 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922005204 Helix-turn-helix domains; Region: HTH; cl00088 205922005205 aspartate aminotransferase; Provisional; Region: PRK05764 205922005206 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 205922005207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922005208 homodimer interface [polypeptide binding]; other site 205922005209 catalytic residue [active] 205922005210 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922005211 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 205922005212 homodecamer interface [polypeptide binding]; other site 205922005213 GTP cyclohydrolase I; Provisional; Region: PLN03044 205922005214 active site 205922005215 putative catalytic site residues [active] 205922005216 zinc binding site [ion binding]; other site 205922005217 GTP-CH-I/GFRP interaction surface; other site 205922005218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 205922005219 Smr domain; Region: Smr; cl02619 205922005220 Isochorismatase family; Region: Isochorismatase; pfam00857 205922005221 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 205922005222 catalytic triad [active] 205922005223 conserved cis-peptide bond; other site 205922005224 HemK family putative methylases; Region: hemK_fam; TIGR00536 205922005225 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 205922005226 S-adenosylmethionine binding site [chemical binding]; other site 205922005227 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922005228 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 205922005229 Tetramer interface [polypeptide binding]; other site 205922005230 active site 205922005231 FMN-binding site [chemical binding]; other site 205922005232 MFS_1 like family; Region: MFS_1_like; pfam12832 205922005233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005234 putative substrate translocation pore; other site 205922005235 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 205922005236 intersubunit interface [polypeptide binding]; other site 205922005237 active site 205922005238 Zn2+ binding site [ion binding]; other site 205922005239 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 205922005240 Cupin domain; Region: Cupin_2; cl09118 205922005241 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 205922005242 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 205922005243 motif II; other site 205922005244 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 205922005245 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 205922005246 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005247 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 205922005248 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 205922005249 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 205922005250 spermidine synthase; Provisional; Region: PRK00811 205922005251 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 205922005252 S-adenosylmethionine binding site [chemical binding]; other site 205922005253 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 205922005254 Uncharacterized conserved protein [Function unknown]; Region: COG2308 205922005255 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 205922005256 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 205922005257 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 205922005258 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 205922005259 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 205922005260 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922005261 Cytochrome c; Region: Cytochrom_C; cl11414 205922005262 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 205922005263 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 205922005264 dimer interface [polypeptide binding]; other site 205922005265 active site 205922005266 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 205922005267 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 205922005268 substrate binding site [chemical binding]; other site 205922005269 oxyanion hole (OAH) forming residues; other site 205922005270 trimer interface [polypeptide binding]; other site 205922005271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922005272 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922005273 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 205922005274 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 205922005275 catalytic triad [active] 205922005276 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 205922005277 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 205922005278 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 205922005279 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205922005280 putative acyl-acceptor binding pocket; other site 205922005281 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 205922005282 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 205922005283 substrate binding site [chemical binding]; other site 205922005284 oxyanion hole (OAH) forming residues; other site 205922005285 trimer interface [polypeptide binding]; other site 205922005286 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 205922005287 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922005288 RHS Repeat; Region: RHS_repeat; cl11982 205922005289 RHS Repeat; Region: RHS_repeat; cl11982 205922005290 RHS Repeat; Region: RHS_repeat; cl11982 205922005291 RHS Repeat; Region: RHS_repeat; cl11982 205922005292 RHS Repeat; Region: RHS_repeat; cl11982 205922005293 RHS Repeat; Region: RHS_repeat; cl11982 205922005294 RHS Repeat; Region: RHS_repeat; cl11982 205922005295 RHS Repeat; Region: RHS_repeat; cl11982 205922005296 RHS Repeat; Region: RHS_repeat; cl11982 205922005297 RHS protein; Region: RHS; pfam03527 205922005298 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922005299 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922005300 hydrolase; Region: PLN02811 205922005301 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 205922005302 motif II; other site 205922005303 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205922005304 classical (c) SDRs; Region: SDR_c; cd05233 205922005305 NAD(P) binding site [chemical binding]; other site 205922005306 active site 205922005307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922005308 Helix-turn-helix domains; Region: HTH; cl00088 205922005309 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 205922005310 putative effector binding pocket; other site 205922005311 dimerization interface [polypeptide binding]; other site 205922005312 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 205922005313 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 205922005314 Na binding site [ion binding]; other site 205922005315 putative substrate binding site [chemical binding]; other site 205922005316 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 205922005317 Active Sites [active] 205922005318 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922005319 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 205922005320 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 205922005321 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 205922005322 chorismate binding enzyme; Region: Chorismate_bind; cl10555 205922005323 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922005324 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 205922005325 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 205922005326 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 205922005327 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922005328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922005329 DNA-binding site [nucleotide binding]; DNA binding site 205922005330 FCD domain; Region: FCD; cl11656 205922005331 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 205922005332 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 205922005333 tetramer interface [polypeptide binding]; other site 205922005334 active site 205922005335 Mg2+/Mn2+ binding site [ion binding]; other site 205922005336 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 205922005337 dimer interface [polypeptide binding]; other site 205922005338 Citrate synthase; Region: Citrate_synt; pfam00285 205922005339 active site 205922005340 citrylCoA binding site [chemical binding]; other site 205922005341 oxalacetate/citrate binding site [chemical binding]; other site 205922005342 coenzyme A binding site [chemical binding]; other site 205922005343 catalytic triad [active] 205922005344 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 205922005345 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 205922005346 substrate binding site [chemical binding]; other site 205922005347 ligand binding site [chemical binding]; other site 205922005348 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 205922005349 substrate binding site [chemical binding]; other site 205922005350 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 205922005351 PrpF protein; Region: PrpF; pfam04303 205922005352 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 205922005353 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 205922005354 phosphoenolpyruvate synthase; Validated; Region: PRK06464 205922005355 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 205922005356 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 205922005357 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 205922005358 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922005359 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922005360 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 205922005361 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 205922005362 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 205922005363 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 205922005364 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 205922005365 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922005366 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 205922005367 DNA binding residues [nucleotide binding] 205922005368 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922005369 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922005370 ligand binding site [chemical binding]; other site 205922005371 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922005372 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 205922005373 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 205922005374 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 205922005375 [4Fe-4S] binding site [ion binding]; other site 205922005376 molybdopterin cofactor binding site; other site 205922005377 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 205922005378 molybdopterin cofactor binding site; other site 205922005379 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 205922005380 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 205922005381 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 205922005382 [2Fe-2S] cluster binding site [ion binding]; other site 205922005383 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 205922005384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922005385 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 205922005386 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 205922005387 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922005388 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 205922005389 active site 205922005390 Catalytic domain of Protein Kinases; Region: PKc; cd00180 205922005391 active site 205922005392 ATP binding site [chemical binding]; other site 205922005393 substrate binding site [chemical binding]; other site 205922005394 activation loop (A-loop); other site 205922005395 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 205922005396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005397 putative substrate translocation pore; other site 205922005398 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 205922005399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922005400 active site 205922005401 phosphorylation site [posttranslational modification] 205922005402 intermolecular recognition site; other site 205922005403 dimerization interface [polypeptide binding]; other site 205922005404 ANTAR domain; Region: ANTAR; cl04297 205922005405 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 205922005406 NMT1-like family; Region: NMT1_2; cl15260 205922005407 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 205922005408 quinone interaction residues [chemical binding]; other site 205922005409 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 205922005410 active site 205922005411 catalytic residues [active] 205922005412 FMN binding site [chemical binding]; other site 205922005413 substrate binding site [chemical binding]; other site 205922005414 Ribosome modulation factor; Region: RMF; cl01207 205922005415 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 205922005416 THUMP domain; Region: THUMP; cl12076 205922005417 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922005418 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 205922005419 S-adenosylmethionine binding site [chemical binding]; other site 205922005420 CHASE domain; Region: CHASE; cl01369 205922005421 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 205922005422 PAS domain; Region: PAS_9; pfam13426 205922005423 putative active site [active] 205922005424 heme pocket [chemical binding]; other site 205922005425 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 205922005426 PAS fold; Region: PAS_3; pfam08447 205922005427 putative active site [active] 205922005428 heme pocket [chemical binding]; other site 205922005429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922005430 metal binding site [ion binding]; metal-binding site 205922005431 active site 205922005432 I-site; other site 205922005433 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 205922005434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922005435 Protein with unknown function (DUF469); Region: DUF469; cl01237 205922005436 benzoate transporter; Region: benE; TIGR00843 205922005437 Benzoate membrane transport protein; Region: BenE; pfam03594 205922005438 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922005439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922005440 DNA-binding site [nucleotide binding]; DNA binding site 205922005441 FCD domain; Region: FCD; cl11656 205922005442 guanine deaminase; Provisional; Region: PRK09228 205922005443 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 205922005444 active site 205922005445 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 205922005446 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 205922005447 XdhC Rossmann domain; Region: XdhC_C; pfam13478 205922005448 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 205922005449 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922005450 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922005451 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 205922005452 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 205922005453 catalytic loop [active] 205922005454 iron binding site [ion binding]; other site 205922005455 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922005456 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 205922005457 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922005458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922005459 DNA-binding site [nucleotide binding]; DNA binding site 205922005460 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 205922005461 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 205922005462 Walker A/P-loop; other site 205922005463 ATP binding site [chemical binding]; other site 205922005464 Q-loop/lid; other site 205922005465 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 205922005466 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 205922005467 ABC transporter signature motif; other site 205922005468 Walker B; other site 205922005469 D-loop; other site 205922005470 H-loop/switch region; other site 205922005471 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 205922005472 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 205922005473 FtsZ protein binding site [polypeptide binding]; other site 205922005474 Ligase N family; Region: LIGANc; smart00532 205922005475 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 205922005476 nucleotide binding pocket [chemical binding]; other site 205922005477 K-X-D-G motif; other site 205922005478 catalytic site [active] 205922005479 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 205922005480 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 205922005481 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 205922005482 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 205922005483 Dimer interface [polypeptide binding]; other site 205922005484 BRCT sequence motif; other site 205922005485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 205922005486 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 205922005487 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 205922005488 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922005489 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 205922005490 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 205922005491 Walker A motif; other site 205922005492 ATP binding site [chemical binding]; other site 205922005493 Walker B motif; other site 205922005494 arginine finger; other site 205922005495 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 205922005496 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 205922005497 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 205922005498 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 205922005499 Prostaglandin dehydrogenases; Region: PGDH; cd05288 205922005500 NAD(P) binding site [chemical binding]; other site 205922005501 substrate binding site [chemical binding]; other site 205922005502 dimer interface [polypeptide binding]; other site 205922005503 recombination protein RecR; Reviewed; Region: recR; PRK00076 205922005504 RecR protein; Region: RecR; pfam02132 205922005505 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 205922005506 putative active site [active] 205922005507 putative metal-binding site [ion binding]; other site 205922005508 tetramer interface [polypeptide binding]; other site 205922005509 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922005510 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922005511 active site 205922005512 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922005513 active site 205922005514 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 205922005515 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 205922005516 ligand binding site [chemical binding]; other site 205922005517 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 205922005518 putative switch regulator; other site 205922005519 non-specific DNA interactions [nucleotide binding]; other site 205922005520 DNA binding site [nucleotide binding] 205922005521 sequence specific DNA binding site [nucleotide binding]; other site 205922005522 putative cAMP binding site [chemical binding]; other site 205922005523 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 205922005524 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 205922005525 FeS/SAM binding site; other site 205922005526 HemN C-terminal domain; Region: HemN_C; pfam06969 205922005527 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 205922005528 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 205922005529 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 205922005530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 205922005531 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 205922005532 metal-binding site [ion binding] 205922005533 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 205922005534 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922005535 FixH; Region: FixH; cl01254 205922005536 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 205922005537 4Fe-4S binding domain; Region: Fer4_5; pfam12801 205922005538 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 205922005539 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 205922005540 active site 205922005541 metal binding site [ion binding]; metal-binding site 205922005542 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 205922005543 Cytochrome c; Region: Cytochrom_C; cl11414 205922005544 Cytochrome c; Region: Cytochrom_C; cl11414 205922005545 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 205922005546 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 205922005547 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 205922005548 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 205922005549 Low-spin heme binding site [chemical binding]; other site 205922005550 Putative water exit pathway; other site 205922005551 Binuclear center (active site) [active] 205922005552 Putative proton exit pathway; other site 205922005553 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 205922005554 Cytochrome c; Region: Cytochrom_C; cl11414 205922005555 Cytochrome c; Region: Cytochrom_C; cl11414 205922005556 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 205922005557 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 205922005558 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 205922005559 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 205922005560 Low-spin heme binding site [chemical binding]; other site 205922005561 Putative water exit pathway; other site 205922005562 Binuclear center (active site) [active] 205922005563 Putative proton exit pathway; other site 205922005564 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 205922005565 26S proteasome subunit RPN7; Region: RPN7; pfam10602 205922005566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005567 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 205922005568 Walker A/P-loop; other site 205922005569 ATP binding site [chemical binding]; other site 205922005570 Q-loop/lid; other site 205922005571 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 205922005572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005573 ABC transporter signature motif; other site 205922005574 Walker B; other site 205922005575 D-loop; other site 205922005576 H-loop/switch region; other site 205922005577 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 205922005578 PAS domain; Region: PAS_9; pfam13426 205922005579 putative active site [active] 205922005580 heme pocket [chemical binding]; other site 205922005581 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922005582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922005583 dimer interface [polypeptide binding]; other site 205922005584 putative CheW interface [polypeptide binding]; other site 205922005585 CAAX protease self-immunity; Region: Abi; cl00558 205922005586 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 205922005587 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 205922005588 conserved cys residue [active] 205922005589 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922005590 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922005591 conserved cys residue [active] 205922005592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922005593 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922005594 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922005595 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 205922005596 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 205922005597 glucose-1-dehydrogenase; Provisional; Region: PRK08936 205922005598 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 205922005599 NAD binding site [chemical binding]; other site 205922005600 homodimer interface [polypeptide binding]; other site 205922005601 active site 205922005602 Non-plant Terpene Cyclases, Class 1; Region: Terpene_cyclase_nonplant_C1; cd00687 205922005603 substrate binding pocket [chemical binding]; other site 205922005604 substrate-Mg2+ binding site; other site 205922005605 aspartate-rich region 1; other site 205922005606 active site lid residues [active] 205922005607 aspartate-rich region 2; other site 205922005608 SCP-2 sterol transfer family; Region: SCP2; cl01225 205922005609 JmjC domain, hydroxylase; Region: JmjC; cl15814 205922005610 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 205922005611 peptide synthase; Provisional; Region: PRK12316 205922005612 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922005613 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005614 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005615 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005616 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 205922005617 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005618 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005619 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005620 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 205922005621 peptide synthase; Provisional; Region: PRK12316 205922005622 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005623 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005624 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 205922005625 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005626 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005627 peptide synthase; Provisional; Region: PRK12467 205922005628 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922005629 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005630 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005631 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922005632 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005633 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005634 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 205922005635 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005636 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005637 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 205922005638 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922005639 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 205922005640 peptide synthase; Provisional; Region: PRK12316 205922005641 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005642 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005643 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005644 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922005645 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 205922005646 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 205922005647 N-terminal plug; other site 205922005648 ligand-binding site [chemical binding]; other site 205922005649 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 205922005650 RNA polymerase II transcription mediator complex subunit 9; Region: Med9; pfam07544 205922005651 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922005652 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005653 AMP-binding enzyme; Region: AMP-binding; cl15778 205922005654 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922005655 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 205922005656 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922005657 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 205922005658 Walker A/P-loop; other site 205922005659 ATP binding site [chemical binding]; other site 205922005660 Q-loop/lid; other site 205922005661 ABC transporter signature motif; other site 205922005662 Walker B; other site 205922005663 D-loop; other site 205922005664 H-loop/switch region; other site 205922005665 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 205922005666 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 205922005667 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 205922005668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922005669 catalytic residue [active] 205922005670 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 205922005671 active site 205922005672 dimer interface [polypeptide binding]; other site 205922005673 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 205922005674 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922005675 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 205922005676 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 205922005677 Walker A/P-loop; other site 205922005678 ATP binding site [chemical binding]; other site 205922005679 Q-loop/lid; other site 205922005680 ABC transporter signature motif; other site 205922005681 Walker B; other site 205922005682 D-loop; other site 205922005683 H-loop/switch region; other site 205922005684 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205922005685 FtsX-like permease family; Region: FtsX; cl15850 205922005686 macrolide transporter subunit MacA; Provisional; Region: PRK11578 205922005687 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922005688 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922005689 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922005690 RNA polymerase sigma factor; Reviewed; Region: PRK12527 205922005691 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 205922005692 DNA binding residues [nucleotide binding] 205922005693 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 205922005694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922005695 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 205922005696 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 205922005697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 205922005698 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 205922005699 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922005700 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 205922005701 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 205922005702 MgtC family; Region: MgtC; pfam02308 205922005703 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922005704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922005705 active site 205922005706 phosphorylation site [posttranslational modification] 205922005707 intermolecular recognition site; other site 205922005708 dimerization interface [polypeptide binding]; other site 205922005709 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 205922005710 DNA binding residues [nucleotide binding] 205922005711 dimerization interface [polypeptide binding]; other site 205922005712 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 205922005713 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 205922005714 substrate binding pocket [chemical binding]; other site 205922005715 membrane-bound complex binding site; other site 205922005716 hinge residues; other site 205922005717 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 205922005718 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922005719 substrate binding pocket [chemical binding]; other site 205922005720 membrane-bound complex binding site; other site 205922005721 hinge residues; other site 205922005722 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 205922005723 dimer interface [polypeptide binding]; other site 205922005724 phosphorylation site [posttranslational modification] 205922005725 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922005726 ATP binding site [chemical binding]; other site 205922005727 Mg2+ binding site [ion binding]; other site 205922005728 G-X-G motif; other site 205922005729 Response regulator receiver domain; Region: Response_reg; pfam00072 205922005730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922005731 active site 205922005732 phosphorylation site [posttranslational modification] 205922005733 intermolecular recognition site; other site 205922005734 dimerization interface [polypeptide binding]; other site 205922005735 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 205922005736 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 205922005737 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 205922005738 active site 205922005739 catalytic tetrad [active] 205922005740 Pirin-related protein [General function prediction only]; Region: COG1741 205922005741 Cupin domain; Region: Cupin_2; cl09118 205922005742 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 205922005743 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922005744 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 205922005745 ligand binding site [chemical binding]; other site 205922005746 flexible hinge region; other site 205922005747 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 205922005748 putative catalytic site [active] 205922005749 putative phosphate binding site [ion binding]; other site 205922005750 active site 205922005751 metal binding site A [ion binding]; metal-binding site 205922005752 DNA binding site [nucleotide binding] 205922005753 putative AP binding site [nucleotide binding]; other site 205922005754 putative metal binding site B [ion binding]; other site 205922005755 N-acetyltransferase; Region: Acetyltransf_2; cl00949 205922005756 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 205922005757 xanthine permease; Region: pbuX; TIGR03173 205922005758 Sulfate transporter family; Region: Sulfate_transp; cl15842 205922005759 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 205922005760 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 205922005761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922005762 homodimer interface [polypeptide binding]; other site 205922005763 catalytic residue [active] 205922005764 excinuclease ABC subunit B; Provisional; Region: PRK05298 205922005765 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 205922005766 ATP binding site [chemical binding]; other site 205922005767 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 205922005768 nucleotide binding region [chemical binding]; other site 205922005769 ATP-binding site [chemical binding]; other site 205922005770 Ultra-violet resistance protein B; Region: UvrB; pfam12344 205922005771 UvrB/uvrC motif; Region: UVR; pfam02151 205922005772 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922005773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005774 putative substrate translocation pore; other site 205922005775 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922005776 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 205922005777 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922005778 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922005779 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 205922005780 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 205922005781 active site 205922005782 HIGH motif; other site 205922005783 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 205922005784 active site 205922005785 KMSKS motif; other site 205922005786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922005787 Helix-turn-helix domains; Region: HTH; cl00088 205922005788 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922005789 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922005790 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 205922005791 active site 205922005792 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 205922005793 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 205922005794 FMN binding site [chemical binding]; other site 205922005795 active site 205922005796 catalytic residues [active] 205922005797 substrate binding site [chemical binding]; other site 205922005798 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 205922005799 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 205922005800 putative dimer interface [polypeptide binding]; other site 205922005801 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 205922005802 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 205922005803 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 205922005804 PAS fold; Region: PAS_3; pfam08447 205922005805 putative diguanylate cyclase; Provisional; Region: PRK09776 205922005806 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 205922005807 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 205922005808 PAS domain S-box; Region: sensory_box; TIGR00229 205922005809 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 205922005810 putative active site [active] 205922005811 heme pocket [chemical binding]; other site 205922005812 PAS domain S-box; Region: sensory_box; TIGR00229 205922005813 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 205922005814 putative active site [active] 205922005815 heme pocket [chemical binding]; other site 205922005816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922005817 metal binding site [ion binding]; metal-binding site 205922005818 active site 205922005819 I-site; other site 205922005820 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 205922005821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922005822 Helix-turn-helix domains; Region: HTH; cl00088 205922005823 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 205922005824 dimerization interface [polypeptide binding]; other site 205922005825 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 205922005826 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 205922005827 substrate binding site [chemical binding]; other site 205922005828 ligand binding site [chemical binding]; other site 205922005829 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 205922005830 substrate binding site [chemical binding]; other site 205922005831 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 205922005832 S-adenosylmethionine binding site [chemical binding]; other site 205922005833 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 205922005834 tartrate dehydrogenase; Provisional; Region: PRK08194 205922005835 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 205922005836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922005837 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 205922005838 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 205922005839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922005840 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 205922005841 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 205922005842 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 205922005843 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 205922005844 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 205922005845 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 205922005846 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 205922005847 dimerization interface 3.5A [polypeptide binding]; other site 205922005848 active site 205922005849 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 205922005850 active site 205922005851 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 205922005852 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922005853 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 205922005854 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205922005855 Sporulation related domain; Region: SPOR; cl10051 205922005856 Colicin V production protein; Region: Colicin_V; cl00567 205922005857 amidophosphoribosyltransferase; Provisional; Region: PRK09246 205922005858 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 205922005859 active site 205922005860 tetramer interface [polypeptide binding]; other site 205922005861 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922005862 active site 205922005863 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 205922005864 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 205922005865 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 205922005866 homodimer interface [polypeptide binding]; other site 205922005867 substrate-cofactor binding pocket; other site 205922005868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922005869 catalytic residue [active] 205922005870 oxidoreductase; Validated; Region: PRK05717 205922005871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922005872 NAD(P) binding site [chemical binding]; other site 205922005873 active site 205922005874 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922005875 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922005876 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922005877 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922005878 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 205922005879 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922005880 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922005881 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 205922005882 Cytochrome c; Region: Cytochrom_C; cl11414 205922005883 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 205922005884 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 205922005885 XdhC Rossmann domain; Region: XdhC_C; pfam13478 205922005886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922005887 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 205922005888 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922005889 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 205922005890 Global regulator protein family; Region: CsrA; cl00670 205922005891 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 205922005892 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 205922005893 FAD binding pocket [chemical binding]; other site 205922005894 FAD binding motif [chemical binding]; other site 205922005895 phosphate binding motif [ion binding]; other site 205922005896 NAD binding pocket [chemical binding]; other site 205922005897 DNA-specific endonuclease I; Provisional; Region: PRK15137 205922005898 Endonuclease I; Region: Endonuclease_1; cl01003 205922005899 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 205922005900 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 205922005901 homodimer interface [polypeptide binding]; other site 205922005902 active site 205922005903 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 205922005904 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 205922005905 ligand binding site [chemical binding]; other site 205922005906 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 205922005907 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 205922005908 Walker A/P-loop; other site 205922005909 ATP binding site [chemical binding]; other site 205922005910 Q-loop/lid; other site 205922005911 ABC transporter signature motif; other site 205922005912 Walker B; other site 205922005913 D-loop; other site 205922005914 H-loop/switch region; other site 205922005915 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 205922005916 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205922005917 TM-ABC transporter signature motif; other site 205922005918 Transcriptional regulators [Transcription]; Region: PurR; COG1609 205922005919 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205922005920 DNA binding site [nucleotide binding] 205922005921 domain linker motif; other site 205922005922 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 205922005923 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205922005924 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 205922005925 substrate binding site [chemical binding]; other site 205922005926 dimer interface [polypeptide binding]; other site 205922005927 ATP binding site [chemical binding]; other site 205922005928 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 205922005929 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 205922005930 active site 205922005931 tetramer interface [polypeptide binding]; other site 205922005932 Potato inhibitor I family; Region: potato_inhibit; cl15459 205922005933 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 205922005934 DNA-binding site [nucleotide binding]; DNA binding site 205922005935 RNA-binding motif; other site 205922005936 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 205922005937 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 205922005938 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 205922005939 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 205922005940 active site 205922005941 dimer interface [polypeptide binding]; other site 205922005942 motif 1; other site 205922005943 motif 2; other site 205922005944 motif 3; other site 205922005945 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 205922005946 anticodon binding site; other site 205922005947 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 205922005948 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 205922005949 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 205922005950 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 205922005951 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 205922005952 23S rRNA binding site [nucleotide binding]; other site 205922005953 L21 binding site [polypeptide binding]; other site 205922005954 L13 binding site [polypeptide binding]; other site 205922005955 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 205922005956 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 205922005957 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 205922005958 dimer interface [polypeptide binding]; other site 205922005959 motif 1; other site 205922005960 active site 205922005961 motif 2; other site 205922005962 motif 3; other site 205922005963 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 205922005964 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 205922005965 putative tRNA-binding site [nucleotide binding]; other site 205922005966 B3/4 domain; Region: B3_4; cl11458 205922005967 tRNA synthetase B5 domain; Region: B5; cl08394 205922005968 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 205922005969 dimer interface [polypeptide binding]; other site 205922005970 motif 1; other site 205922005971 motif 3; other site 205922005972 motif 2; other site 205922005973 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 205922005974 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 205922005975 IHF dimer interface [polypeptide binding]; other site 205922005976 IHF - DNA interface [nucleotide binding]; other site 205922005977 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 205922005978 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 205922005979 DNA binding residues [nucleotide binding] 205922005980 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 205922005981 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922005983 Family description; Region: UvrD_C_2; cl15862 205922005984 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 205922005985 putative active site [active] 205922005986 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 205922005987 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 205922005988 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 205922005989 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 205922005990 Walker A motif; other site 205922005991 ATP binding site [chemical binding]; other site 205922005992 Walker B motif; other site 205922005993 arginine finger; other site 205922005994 TROVE domain; Region: TROVE; pfam05731 205922005995 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922005996 metal ion-dependent adhesion site (MIDAS); other site 205922005997 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 205922005998 hypothetical protein; Reviewed; Region: PRK09588 205922005999 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 205922006000 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 205922006001 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in...; Region: RNA_Cyclase_Class_II; cd00874 205922006002 putative active site [active] 205922006003 adenylation catalytic residue [active] 205922006004 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922006005 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 205922006006 dimer interface [polypeptide binding]; other site 205922006007 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006008 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 205922006009 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 205922006010 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 205922006011 NAD(P) binding site [chemical binding]; other site 205922006012 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 205922006013 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922006014 Helix-turn-helix domains; Region: HTH; cl00088 205922006015 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 205922006016 dimerization interface [polypeptide binding]; other site 205922006017 Pirin-related protein [General function prediction only]; Region: COG1741 205922006018 Cupin domain; Region: Cupin_2; cl09118 205922006019 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922006020 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922006021 conserved cys residue [active] 205922006022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006024 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 205922006025 DNA binding site [nucleotide binding] 205922006026 Predicted ATPase [General function prediction only]; Region: COG3903 205922006027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922006028 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 205922006029 DNA binding site [nucleotide binding] 205922006030 Predicted ATPase [General function prediction only]; Region: COG3903 205922006031 Predicted ATPase [General function prediction only]; Region: COG3903 205922006032 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922006033 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006034 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922006035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006036 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922006037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922006038 Helix-turn-helix domains; Region: HTH; cl00088 205922006039 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 205922006040 putative substrate binding pocket [chemical binding]; other site 205922006041 putative dimerization interface [polypeptide binding]; other site 205922006042 DoxX; Region: DoxX; cl00976 205922006043 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922006044 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 205922006045 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 205922006046 active site 205922006047 Isochorismatase family; Region: Isochorismatase; pfam00857 205922006048 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 205922006049 catalytic triad [active] 205922006050 dimer interface [polypeptide binding]; other site 205922006051 conserved cis-peptide bond; other site 205922006052 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922006053 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 205922006054 ligand binding site [chemical binding]; other site 205922006055 flexible hinge region; other site 205922006056 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006057 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 205922006058 substrate binding pocket [chemical binding]; other site 205922006059 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006060 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922006061 Helix-turn-helix domains; Region: HTH; cl00088 205922006062 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 205922006063 putative effector binding pocket; other site 205922006064 dimerization interface [polypeptide binding]; other site 205922006065 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 205922006066 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922006067 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922006068 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 205922006069 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 205922006070 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922006071 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922006072 catalytic residue [active] 205922006073 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922006074 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 205922006075 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 205922006076 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 205922006077 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 205922006078 Cu(I) binding site [ion binding]; other site 205922006079 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 205922006080 Cu(I) binding site [ion binding]; other site 205922006081 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 205922006082 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 205922006083 SurA N-terminal domain; Region: SurA_N_3; cl07813 205922006084 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922006085 Response regulator receiver domain; Region: Response_reg; pfam00072 205922006086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922006087 active site 205922006088 phosphorylation site [posttranslational modification] 205922006089 intermolecular recognition site; other site 205922006090 dimerization interface [polypeptide binding]; other site 205922006091 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 205922006092 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 205922006093 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 205922006094 Walker A motif; other site 205922006095 ATP binding site [chemical binding]; other site 205922006096 Walker B motif; other site 205922006097 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 205922006098 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 205922006099 TPR repeat; Region: TPR_11; pfam13414 205922006100 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 205922006101 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205922006102 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 205922006103 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 205922006104 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 205922006105 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 205922006106 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 205922006107 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 205922006108 Curli assembly protein CsgE; Region: CsgE; cl08115 205922006109 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 205922006110 TolB amino-terminal domain; Region: TolB_N; cl00639 205922006111 major curlin subunit; Provisional; Region: csgA; PRK10051 205922006112 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 205922006113 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 205922006114 Curlin associated repeat; Region: Curlin_rpt; pfam07012 205922006115 sensor protein ZraS; Provisional; Region: PRK10364 205922006116 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 205922006117 dimer interface [polypeptide binding]; other site 205922006118 phosphorylation site [posttranslational modification] 205922006119 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922006120 ATP binding site [chemical binding]; other site 205922006121 Mg2+ binding site [ion binding]; other site 205922006122 G-X-G motif; other site 205922006123 FtsI repressor; Provisional; Region: PRK10883 205922006124 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922006125 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 205922006126 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 205922006127 Cu(I) binding site [ion binding]; other site 205922006128 Cytochrome c; Region: Cytochrom_C; cl11414 205922006129 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 205922006130 dimer interface [polypeptide binding]; other site 205922006131 phosphorylation site [posttranslational modification] 205922006132 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 205922006133 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922006134 ATP binding site [chemical binding]; other site 205922006135 Mg2+ binding site [ion binding]; other site 205922006136 G-X-G motif; other site 205922006137 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922006138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922006139 active site 205922006140 phosphorylation site [posttranslational modification] 205922006141 intermolecular recognition site; other site 205922006142 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 205922006143 Walker A motif; other site 205922006144 ATP binding site [chemical binding]; other site 205922006145 Walker B motif; other site 205922006146 Helix-turn-helix domains; Region: HTH; cl00088 205922006147 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 205922006148 S-adenosylmethionine binding site [chemical binding]; other site 205922006149 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 205922006150 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922006151 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 205922006152 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 205922006153 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 205922006154 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922006155 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 205922006156 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 205922006157 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 205922006158 putative active site [active] 205922006159 putative metal binding site [ion binding]; other site 205922006160 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 205922006161 putative active site [active] 205922006162 putative metal binding site [ion binding]; other site 205922006163 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 205922006164 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 205922006165 DXD motif; other site 205922006166 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 205922006167 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 205922006168 active site 205922006169 O-Antigen ligase; Region: Wzy_C; cl04850 205922006170 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 205922006171 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 205922006172 Chain length determinant protein; Region: Wzz; cl15801 205922006173 Chain length determinant protein; Region: Wzz; cl15801 205922006174 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 205922006175 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 205922006176 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 205922006177 SLBB domain; Region: SLBB; pfam10531 205922006178 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 205922006179 Bacterial sugar transferase; Region: Bac_transf; cl00939 205922006180 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 205922006181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006182 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 205922006183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006184 Sulfatase; Region: Sulfatase; cl10460 205922006185 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 205922006186 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 205922006187 Walker A/P-loop; other site 205922006188 ATP binding site [chemical binding]; other site 205922006189 Q-loop/lid; other site 205922006190 ABC transporter signature motif; other site 205922006191 Walker B; other site 205922006192 D-loop; other site 205922006193 H-loop/switch region; other site 205922006194 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 205922006195 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205922006196 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 205922006197 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 205922006198 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 205922006199 putative transposase OrfB; Reviewed; Region: PHA02517 205922006200 Integrase core domain; Region: rve; cl01316 205922006201 Integrase core domain; Region: rve_3; cl15866 205922006202 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 205922006203 active site 205922006204 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 205922006205 VanW like protein; Region: VanW; pfam04294 205922006206 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 205922006207 RNAase interaction site [polypeptide binding]; other site 205922006208 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 205922006209 active site 205922006210 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922006211 RHS Repeat; Region: RHS_repeat; cl11982 205922006212 RHS Repeat; Region: RHS_repeat; cl11982 205922006213 RHS Repeat; Region: RHS_repeat; cl11982 205922006214 RHS Repeat; Region: RHS_repeat; cl11982 205922006215 RHS Repeat; Region: RHS_repeat; cl11982 205922006216 RHS Repeat; Region: RHS_repeat; cl11982 205922006217 RHS Repeat; Region: RHS_repeat; cl11982 205922006218 RHS Repeat; Region: RHS_repeat; cl11982 205922006219 RHS Repeat; Region: RHS_repeat; cl11982 205922006220 RHS Repeat; Region: RHS_repeat; cl11982 205922006221 RHS protein; Region: RHS; pfam03527 205922006222 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922006223 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 205922006224 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922006225 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922006226 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922006227 Protein of unknown function (DUF796); Region: DUF796; cl01226 205922006228 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 205922006229 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 205922006230 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922006231 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006232 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 205922006233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006234 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 205922006235 MASE2 domain; Region: MASE2; pfam05230 205922006236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922006237 metal binding site [ion binding]; metal-binding site 205922006238 active site 205922006239 I-site; other site 205922006240 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 205922006241 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 205922006242 metal binding site [ion binding]; metal-binding site 205922006243 dimer interface [polypeptide binding]; other site 205922006244 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 205922006245 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 205922006246 tetramer interface [polypeptide binding]; other site 205922006247 active site 205922006248 Mg2+/Mn2+ binding site [ion binding]; other site 205922006249 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 205922006250 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 205922006251 Spore germination protein; Region: Spore_permease; cl15802 205922006252 amino acid transporter; Region: 2A0306; TIGR00909 205922006253 N-formylglutamate amidohydrolase; Region: FGase; cl01522 205922006254 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922006255 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922006256 Isochorismatase family; Region: Isochorismatase; pfam00857 205922006257 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 205922006258 catalytic triad [active] 205922006259 conserved cis-peptide bond; other site 205922006260 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 205922006261 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 205922006262 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 205922006263 putative active site [active] 205922006264 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 205922006265 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922006266 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 205922006267 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 205922006268 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922006269 conserved cys residue [active] 205922006270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006272 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 205922006273 active site residue [active] 205922006274 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 205922006275 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 205922006276 substrate binding pocket [chemical binding]; other site 205922006277 membrane-bound complex binding site; other site 205922006278 hinge residues; other site 205922006279 Predicted deacylase [General function prediction only]; Region: COG3608 205922006280 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 205922006281 active site 205922006282 Zn binding site [ion binding]; other site 205922006283 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006284 Predicted esterase [General function prediction only]; Region: COG0400 205922006285 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 205922006286 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 205922006287 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922006288 Helix-turn-helix domains; Region: HTH; cl00088 205922006289 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 205922006290 putative effector binding pocket; other site 205922006291 dimerization interface [polypeptide binding]; other site 205922006292 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 205922006293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006295 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 205922006296 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 205922006297 dimer interface [polypeptide binding]; other site 205922006298 active site 205922006299 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922006300 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922006301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922006302 Helix-turn-helix domains; Region: HTH; cl00088 205922006303 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 205922006304 putative dimerization interface [polypeptide binding]; other site 205922006305 NAD-dependent deacetylase; Provisional; Region: PRK00481 205922006306 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 205922006307 NAD+ binding site [chemical binding]; other site 205922006308 substrate binding site [chemical binding]; other site 205922006309 Zn binding site [ion binding]; other site 205922006310 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922006311 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 205922006312 S-adenosylmethionine binding site [chemical binding]; other site 205922006313 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 205922006314 Protein of unknown function (DUF692); Region: DUF692; cl01263 205922006315 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 205922006316 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 205922006317 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922006318 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 205922006319 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922006320 dimer interface [polypeptide binding]; other site 205922006321 phosphorylation site [posttranslational modification] 205922006322 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922006323 Mg2+ binding site [ion binding]; other site 205922006324 G-X-G motif; other site 205922006325 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922006326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922006327 active site 205922006328 phosphorylation site [posttranslational modification] 205922006329 intermolecular recognition site; other site 205922006330 dimerization interface [polypeptide binding]; other site 205922006331 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 205922006332 DNA binding site [nucleotide binding] 205922006333 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922006334 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 205922006335 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 205922006336 catalytic residues [active] 205922006337 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922006338 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 205922006339 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 205922006340 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 205922006341 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 205922006342 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 205922006343 putative metal binding site [ion binding]; other site 205922006344 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 205922006345 S-adenosylmethionine binding site [chemical binding]; other site 205922006346 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 205922006347 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 205922006348 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 205922006349 active site 205922006350 DNA binding site [nucleotide binding] 205922006351 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 205922006352 DNA binding site [nucleotide binding] 205922006353 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 205922006354 nucleotide binding site [chemical binding]; other site 205922006355 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 205922006356 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922006357 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922006358 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922006359 dimer interface [polypeptide binding]; other site 205922006360 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 205922006361 putative CheW interface [polypeptide binding]; other site 205922006362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006363 Predicted dehydrogenase [General function prediction only]; Region: COG0579 205922006364 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 205922006365 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 205922006366 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 205922006367 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 205922006368 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 205922006369 active site 205922006370 catalytic tetrad [active] 205922006371 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922006372 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922006373 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922006374 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 205922006375 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 205922006376 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 205922006377 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 205922006378 catalytic loop [active] 205922006379 iron binding site [ion binding]; other site 205922006380 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922006381 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 205922006382 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 205922006383 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 205922006384 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 205922006385 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922006386 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 205922006387 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 205922006388 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922006389 dimer interface [polypeptide binding]; other site 205922006390 conserved gate region; other site 205922006391 putative PBP binding loops; other site 205922006392 ABC-ATPase subunit interface; other site 205922006393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922006394 dimer interface [polypeptide binding]; other site 205922006395 conserved gate region; other site 205922006396 putative PBP binding loops; other site 205922006397 ABC-ATPase subunit interface; other site 205922006398 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 205922006399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922006400 Walker A/P-loop; other site 205922006401 ATP binding site [chemical binding]; other site 205922006402 Q-loop/lid; other site 205922006403 ABC transporter signature motif; other site 205922006404 Walker B; other site 205922006405 D-loop; other site 205922006406 H-loop/switch region; other site 205922006407 TOBE domain; Region: TOBE_2; cl01440 205922006408 Peptidase C26; Region: Peptidase_C26; pfam07722 205922006409 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 205922006410 catalytic triad [active] 205922006411 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922006412 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922006413 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 205922006414 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 205922006415 NAD(P) binding site [chemical binding]; other site 205922006416 catalytic residues [active] 205922006417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006418 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 205922006419 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 205922006420 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 205922006421 non-specific DNA binding site [nucleotide binding]; other site 205922006422 salt bridge; other site 205922006423 sequence-specific DNA binding site [nucleotide binding]; other site 205922006424 Cupin domain; Region: Cupin_2; cl09118 205922006425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 205922006426 putative transposase OrfB; Reviewed; Region: PHA02517 205922006427 Integrase core domain; Region: rve; cl01316 205922006428 Integrase core domain; Region: rve_3; cl15866 205922006429 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922006430 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 205922006431 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 205922006432 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 205922006433 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 205922006434 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 205922006435 multidrug resistance protein MdtN; Provisional; Region: PRK10476 205922006436 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922006437 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922006438 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922006439 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 205922006440 Helix-turn-helix domains; Region: HTH; cl00088 205922006441 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922006442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006443 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 205922006444 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922006445 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922006446 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 205922006447 Chromate transporter; Region: Chromate_transp; pfam02417 205922006448 Chromate transporter; Region: Chromate_transp; pfam02417 205922006449 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 205922006450 MoaE homodimer interface [polypeptide binding]; other site 205922006451 MoaD interaction [polypeptide binding]; other site 205922006452 active site residues [active] 205922006453 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 205922006454 MoaE interaction surface [polypeptide binding]; other site 205922006455 MoeB interaction surface [polypeptide binding]; other site 205922006456 thiocarboxylated glycine; other site 205922006457 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 205922006458 trimer interface [polypeptide binding]; other site 205922006459 dimer interface [polypeptide binding]; other site 205922006460 putative active site [active] 205922006461 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 205922006462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922006463 Helix-turn-helix domains; Region: HTH; cl00088 205922006464 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 205922006465 dimerization interface [polypeptide binding]; other site 205922006466 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 205922006467 MPT binding site; other site 205922006468 trimer interface [polypeptide binding]; other site 205922006469 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 205922006470 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 205922006471 dimer interface [polypeptide binding]; other site 205922006472 putative functional site; other site 205922006473 putative MPT binding site; other site 205922006474 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 205922006475 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922006476 Helix-turn-helix domains; Region: HTH; cl00088 205922006477 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 205922006478 dimerization interface [polypeptide binding]; other site 205922006479 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 205922006480 agmatine deiminase; Region: agmatine_aguA; TIGR03380 205922006481 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922006482 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 205922006483 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 205922006484 endonuclease III; Region: ENDO3c; smart00478 205922006485 minor groove reading motif; other site 205922006486 helix-hairpin-helix signature motif; other site 205922006487 substrate binding pocket [chemical binding]; other site 205922006488 active site 205922006489 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 205922006490 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 205922006491 tetramer interface [polypeptide binding]; other site 205922006492 active site 205922006493 Mg2+/Mn2+ binding site [ion binding]; other site 205922006494 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 205922006495 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 205922006496 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 205922006497 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 205922006498 DNA binding site [nucleotide binding] 205922006499 active site 205922006500 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 205922006501 dimer interface [polypeptide binding]; other site 205922006502 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922006503 metal binding site [ion binding]; metal-binding site 205922006504 LysE type translocator; Region: LysE; cl00565 205922006505 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 205922006506 heme binding pocket [chemical binding]; other site 205922006507 heme ligand [chemical binding]; other site 205922006508 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 205922006509 GAF domain; Region: GAF; cl15785 205922006510 Phytochrome region; Region: PHY; pfam00360 205922006511 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 205922006512 dimer interface [polypeptide binding]; other site 205922006513 phosphorylation site [posttranslational modification] 205922006514 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922006515 ATP binding site [chemical binding]; other site 205922006516 Mg2+ binding site [ion binding]; other site 205922006517 G-X-G motif; other site 205922006518 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 205922006519 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 205922006520 conserved cys residue [active] 205922006521 LysE type translocator; Region: LysE; cl00565 205922006522 Cupin domain; Region: Cupin_2; cl09118 205922006523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006524 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922006525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006526 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 205922006527 dimer interface [polypeptide binding]; other site 205922006528 NnrS protein; Region: NnrS; cl01258 205922006529 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922006530 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 205922006531 S-adenosylmethionine binding site [chemical binding]; other site 205922006532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922006533 metal binding site [ion binding]; metal-binding site 205922006534 active site 205922006535 I-site; other site 205922006536 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 205922006537 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922006538 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006539 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006540 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 205922006541 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 205922006542 catalytic loop [active] 205922006543 iron binding site [ion binding]; other site 205922006544 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922006545 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922006546 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922006547 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922006548 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922006549 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922006550 GAF domain; Region: GAF; cl15785 205922006551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922006552 metal binding site [ion binding]; metal-binding site 205922006553 active site 205922006554 I-site; other site 205922006555 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 205922006556 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 205922006557 NAD binding site [chemical binding]; other site 205922006558 homotetramer interface [polypeptide binding]; other site 205922006559 homodimer interface [polypeptide binding]; other site 205922006560 substrate binding site [chemical binding]; other site 205922006561 active site 205922006562 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 205922006563 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922006564 Walker A/P-loop; other site 205922006565 ATP binding site [chemical binding]; other site 205922006566 Q-loop/lid; other site 205922006567 ABC transporter signature motif; other site 205922006568 Walker B; other site 205922006569 D-loop; other site 205922006570 H-loop/switch region; other site 205922006571 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922006572 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922006573 Walker A/P-loop; other site 205922006574 ATP binding site [chemical binding]; other site 205922006575 Q-loop/lid; other site 205922006576 ABC transporter signature motif; other site 205922006577 Walker B; other site 205922006578 D-loop; other site 205922006579 H-loop/switch region; other site 205922006580 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922006581 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 205922006582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922006583 dimer interface [polypeptide binding]; other site 205922006584 conserved gate region; other site 205922006585 putative PBP binding loops; other site 205922006586 ABC-ATPase subunit interface; other site 205922006587 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 205922006588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922006589 dimer interface [polypeptide binding]; other site 205922006590 conserved gate region; other site 205922006591 putative PBP binding loops; other site 205922006592 ABC-ATPase subunit interface; other site 205922006593 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 205922006594 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 205922006595 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 205922006596 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 205922006597 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 205922006598 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922006599 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922006600 catalytic residue [active] 205922006601 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205922006602 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205922006603 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 205922006604 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922006605 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 205922006606 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922006607 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 205922006608 RNA/DNA hybrid binding site [nucleotide binding]; other site 205922006609 active site 205922006610 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 205922006611 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 205922006612 active site 205922006613 catalytic site [active] 205922006614 substrate binding site [chemical binding]; other site 205922006615 arginine decarboxylase; Provisional; Region: PRK15029 205922006616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 205922006617 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 205922006618 homodimer interface [polypeptide binding]; other site 205922006619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922006620 catalytic residue [active] 205922006621 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 205922006622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922006623 Coenzyme A binding pocket [chemical binding]; other site 205922006624 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 205922006625 Helix-turn-helix domains; Region: HTH; cl00088 205922006626 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 205922006627 dimerization interface [polypeptide binding]; other site 205922006628 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922006629 arsenical pump membrane protein; Provisional; Region: PRK15445 205922006630 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 205922006631 transmembrane helices; other site 205922006632 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 205922006633 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 205922006634 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 205922006635 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 205922006636 active site 205922006637 metal binding site [ion binding]; metal-binding site 205922006638 Rhomboid family; Region: Rhomboid; cl11446 205922006639 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 205922006640 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 205922006641 aminopeptidase N; Provisional; Region: pepN; PRK14015 205922006642 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 205922006643 active site 205922006644 Zn binding site [ion binding]; other site 205922006645 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 205922006646 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 205922006647 dimer interface [polypeptide binding]; other site 205922006648 active site 205922006649 heme binding site [chemical binding]; other site 205922006650 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 205922006651 Sulfatase; Region: Sulfatase; cl10460 205922006652 NMT1-like family; Region: NMT1_2; cl15260 205922006653 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922006654 OsmC-like protein; Region: OsmC; cl00767 205922006655 Protein of unknown function (DUF461); Region: DUF461; cl01071 205922006656 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 205922006657 Cu(I) binding site [ion binding]; other site 205922006658 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922006659 Helix-turn-helix domains; Region: HTH; cl00088 205922006660 peptide synthase; Provisional; Region: PRK12467 205922006661 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006662 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006663 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006664 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006665 peptide synthase; Provisional; Region: PRK12467 205922006666 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006667 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006668 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006669 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006670 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006671 peptide synthase; Provisional; Region: PRK12467 205922006672 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006673 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006674 peptide synthase; Provisional; Region: PRK12467 205922006675 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006676 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006677 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006678 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006679 peptide synthase; Provisional; Region: PRK12467 205922006680 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006681 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006682 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006683 peptide synthase; Provisional; Region: PRK12467 205922006684 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922006685 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006686 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006687 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922006688 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006689 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006690 peptide synthase; Provisional; Region: PRK12467 205922006691 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006692 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006693 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006694 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 205922006695 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 205922006696 macrolide transporter subunit MacA; Provisional; Region: PRK11578 205922006697 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922006698 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 205922006699 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 205922006700 Walker A/P-loop; other site 205922006701 ATP binding site [chemical binding]; other site 205922006702 Q-loop/lid; other site 205922006703 ABC transporter signature motif; other site 205922006704 Walker B; other site 205922006705 D-loop; other site 205922006706 H-loop/switch region; other site 205922006707 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205922006708 FtsX-like permease family; Region: FtsX; cl15850 205922006709 Helix-turn-helix domains; Region: HTH; cl00088 205922006710 DNA binding residues [nucleotide binding] 205922006711 dimerization interface [polypeptide binding]; other site 205922006712 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 205922006713 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 205922006714 Cysteine-rich domain; Region: CCG; pfam02754 205922006715 Cysteine-rich domain; Region: CCG; pfam02754 205922006716 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 205922006717 FAD binding domain; Region: FAD_binding_4; pfam01565 205922006718 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 205922006719 FAD binding domain; Region: FAD_binding_4; pfam01565 205922006720 LysE type translocator; Region: LysE; cl00565 205922006721 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 205922006722 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 205922006723 putative S-transferase; Provisional; Region: PRK11752 205922006724 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 205922006725 C-terminal domain interface [polypeptide binding]; other site 205922006726 GSH binding site (G-site) [chemical binding]; other site 205922006727 dimer interface [polypeptide binding]; other site 205922006728 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 205922006729 dimer interface [polypeptide binding]; other site 205922006730 N-terminal domain interface [polypeptide binding]; other site 205922006731 active site 205922006732 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922006733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006734 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 205922006735 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 205922006736 tetramer interface [polypeptide binding]; other site 205922006737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922006738 catalytic residue [active] 205922006739 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 205922006740 active site 205922006741 metal binding site [ion binding]; metal-binding site 205922006742 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922006743 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 205922006744 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 205922006745 FMN binding site [chemical binding]; other site 205922006746 active site 205922006747 substrate binding site [chemical binding]; other site 205922006748 catalytic residue [active] 205922006749 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 205922006750 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 205922006751 potential catalytic triad [active] 205922006752 conserved cys residue [active] 205922006753 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922006754 Helix-turn-helix domains; Region: HTH; cl00088 205922006755 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922006756 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 205922006757 N-terminal plug; other site 205922006758 ligand-binding site [chemical binding]; other site 205922006759 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 205922006760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006761 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 205922006762 classical (c) SDRs; Region: SDR_c; cd05233 205922006763 NAD(P) binding site [chemical binding]; other site 205922006764 active site 205922006765 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 205922006766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922006767 D-galactonate transporter; Region: 2A0114; TIGR00893 205922006768 putative substrate translocation pore; other site 205922006769 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922006770 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006771 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 205922006772 NADP binding site [chemical binding]; other site 205922006773 active site 205922006774 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006775 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 205922006776 substrate binding pocket [chemical binding]; other site 205922006777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922006778 Helix-turn-helix domains; Region: HTH; cl00088 205922006779 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 205922006780 putative dimerization interface [polypeptide binding]; other site 205922006781 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 205922006782 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922006783 putative metal binding site [ion binding]; other site 205922006784 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922006785 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 205922006786 FMN binding site [chemical binding]; other site 205922006787 active site 205922006788 substrate binding site [chemical binding]; other site 205922006789 catalytic residue [active] 205922006790 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 205922006791 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 205922006792 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922006793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922006794 Walker A/P-loop; other site 205922006795 ATP binding site [chemical binding]; other site 205922006796 Q-loop/lid; other site 205922006797 ABC transporter signature motif; other site 205922006798 Walker B; other site 205922006799 D-loop; other site 205922006800 H-loop/switch region; other site 205922006801 chaperone protein HchA; Provisional; Region: PRK04155 205922006802 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 205922006803 conserved cys residue [active] 205922006804 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 205922006805 Autoinducer binding domain; Region: Autoind_bind; pfam03472 205922006806 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 205922006807 DNA binding residues [nucleotide binding] 205922006808 dimerization interface [polypeptide binding]; other site 205922006809 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 205922006810 DNA binding site [nucleotide binding] 205922006811 Predicted ATPase [General function prediction only]; Region: COG3903 205922006812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922006813 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 205922006814 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 205922006815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922006816 active site 205922006817 phosphorylation site [posttranslational modification] 205922006818 intermolecular recognition site; other site 205922006819 dimerization interface [polypeptide binding]; other site 205922006820 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 205922006821 DNA binding residues [nucleotide binding] 205922006822 dimerization interface [polypeptide binding]; other site 205922006823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922006824 active site 205922006825 phosphorylation site [posttranslational modification] 205922006826 intermolecular recognition site; other site 205922006827 dimerization interface [polypeptide binding]; other site 205922006828 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 205922006829 PAS fold; Region: PAS_3; pfam08447 205922006830 putative active site [active] 205922006831 heme pocket [chemical binding]; other site 205922006832 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 205922006833 PAS fold; Region: PAS_3; pfam08447 205922006834 putative active site [active] 205922006835 heme pocket [chemical binding]; other site 205922006836 PAS fold; Region: PAS; pfam00989 205922006837 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 205922006838 putative active site [active] 205922006839 heme pocket [chemical binding]; other site 205922006840 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 205922006841 dimer interface [polypeptide binding]; other site 205922006842 phosphorylation site [posttranslational modification] 205922006843 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922006844 ATP binding site [chemical binding]; other site 205922006845 Mg2+ binding site [ion binding]; other site 205922006846 G-X-G motif; other site 205922006847 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922006848 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 205922006849 NADP binding site [chemical binding]; other site 205922006850 dimer interface [polypeptide binding]; other site 205922006851 benzoate transport; Region: 2A0115; TIGR00895 205922006852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922006853 Epoxide hydrolase N terminus; Region: EHN; pfam06441 205922006854 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922006855 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922006856 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922006857 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922006858 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 205922006859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922006860 putative substrate translocation pore; other site 205922006861 Cupin domain; Region: Cupin_2; cl09118 205922006862 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922006863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922006864 Creatinine amidohydrolase; Region: Creatininase; cl00618 205922006865 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 205922006866 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922006867 NAD binding site [chemical binding]; other site 205922006868 catalytic residues [active] 205922006869 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 205922006870 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 205922006871 tetramer interface [polypeptide binding]; other site 205922006872 heme binding pocket [chemical binding]; other site 205922006873 NADPH binding site [chemical binding]; other site 205922006874 OsmC-like protein; Region: OsmC; cl00767 205922006875 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; Region: Sig-70_gvs1; TIGR02989 205922006876 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 205922006877 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006878 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006879 peptide synthase; Provisional; Region: PRK12467 205922006880 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922006881 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006882 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006883 Nonribosomal peptide synthase; Region: NRPS; pfam08415 205922006884 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006885 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 205922006886 putative FMN binding site [chemical binding]; other site 205922006887 NADPH bind site [chemical binding]; other site 205922006888 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 205922006889 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922006890 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006891 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006892 Thioesterase domain; Region: Thioesterase; pfam00975 205922006893 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 205922006894 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006895 peptide synthase; Validated; Region: PRK05691 205922006896 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922006897 AMP-binding enzyme; Region: AMP-binding; cl15778 205922006898 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006899 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 205922006900 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 205922006901 active site 205922006902 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 205922006903 putative NADP binding site [chemical binding]; other site 205922006904 active site 205922006905 peptide synthase; Provisional; Region: PRK12467 205922006906 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922006907 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 205922006908 MbtH-like protein; Region: MbtH; cl01279 205922006909 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 205922006910 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 205922006911 GSCFA family; Region: GSCFA; pfam08885 205922006912 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 205922006913 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922006914 Cupin domain; Region: Cupin_2; cl09118 205922006915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006916 NADH(P)-binding; Region: NAD_binding_10; pfam13460 205922006917 NAD(P) binding site [chemical binding]; other site 205922006918 active site 205922006919 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 205922006920 DNA binding site [nucleotide binding] 205922006921 TolB amino-terminal domain; Region: TolB_N; cl00639 205922006922 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 205922006923 TPR motif; other site 205922006924 binding surface 205922006925 TPR repeat; Region: TPR_11; pfam13414 205922006926 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 205922006927 binding surface 205922006928 TPR motif; other site 205922006929 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 205922006930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922006931 active site 205922006932 phosphorylation site [posttranslational modification] 205922006933 intermolecular recognition site; other site 205922006934 dimerization interface [polypeptide binding]; other site 205922006935 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 205922006936 DNA binding residues [nucleotide binding] 205922006937 dimerization interface [polypeptide binding]; other site 205922006938 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 205922006939 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922006940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922006941 Helix-turn-helix domains; Region: HTH; cl00088 205922006942 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 205922006943 dimerization interface [polypeptide binding]; other site 205922006944 S-type Pyocin; Region: Pyocin_S; pfam06958 205922006945 Cytotoxic; Region: Cytotoxic; pfam09000 205922006946 Cloacin immunity protein; Region: Cloacin_immun; pfam03513 205922006947 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 205922006948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922006949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922006950 AAA domain; Region: AAA_21; pfam13304 205922006951 Walker A/P-loop; other site 205922006952 ATP binding site [chemical binding]; other site 205922006953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922006954 Walker B; other site 205922006955 D-loop; other site 205922006956 H-loop/switch region; other site 205922006957 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 205922006958 active site 205922006959 catalytic residues [active] 205922006960 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 205922006961 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 205922006962 Cache domain; Region: Cache_1; pfam02743 205922006963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922006964 metal binding site [ion binding]; metal-binding site 205922006965 active site 205922006966 I-site; other site 205922006967 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 205922006968 Cache domain; Region: Cache_1; pfam02743 205922006969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922006970 metal binding site [ion binding]; metal-binding site 205922006971 active site 205922006972 I-site; other site 205922006973 Isochorismatase family; Region: Isochorismatase; pfam00857 205922006974 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 205922006975 catalytic triad [active] 205922006976 dimer interface [polypeptide binding]; other site 205922006977 conserved cis-peptide bond; other site 205922006978 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 205922006979 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922006980 putative NAD(P) binding site [chemical binding]; other site 205922006981 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 205922006982 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205922006983 TM-ABC transporter signature motif; other site 205922006984 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 205922006985 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 205922006986 Walker A/P-loop; other site 205922006987 ATP binding site [chemical binding]; other site 205922006988 Q-loop/lid; other site 205922006989 ABC transporter signature motif; other site 205922006990 Walker B; other site 205922006991 D-loop; other site 205922006992 H-loop/switch region; other site 205922006993 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 205922006994 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 205922006995 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 205922006996 putative ligand binding site [chemical binding]; other site 205922006997 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 205922006998 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 205922006999 putative dimerization interface [polypeptide binding]; other site 205922007000 putative ligand binding site [chemical binding]; other site 205922007001 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922007002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007003 FAD dependent oxidoreductase; Region: DAO; pfam01266 205922007004 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 205922007005 dimer interface [polypeptide binding]; other site 205922007006 NADP binding site [chemical binding]; other site 205922007007 catalytic residues [active] 205922007008 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 205922007009 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 205922007010 inhibitor site; inhibition site 205922007011 active site 205922007012 dimer interface [polypeptide binding]; other site 205922007013 catalytic residue [active] 205922007014 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 205922007015 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 205922007016 amino acid transporter; Region: 2A0306; TIGR00909 205922007017 PAS fold; Region: PAS_4; pfam08448 205922007018 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922007019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007020 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 205922007021 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 205922007022 dimer interface [polypeptide binding]; other site 205922007023 active site 205922007024 glycine-pyridoxal phosphate binding site [chemical binding]; other site 205922007025 folate binding site [chemical binding]; other site 205922007026 threonine synthase; Validated; Region: PRK06260 205922007027 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 205922007028 homodimer interface [polypeptide binding]; other site 205922007029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922007030 catalytic residue [active] 205922007031 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 205922007032 homotrimer interaction site [polypeptide binding]; other site 205922007033 putative active site [active] 205922007034 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 205922007035 benzoate transporter; Region: benE; TIGR00843 205922007036 Benzoate membrane transport protein; Region: BenE; pfam03594 205922007037 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 205922007038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922007039 DNA-binding site [nucleotide binding]; DNA binding site 205922007040 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 205922007041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922007042 homodimer interface [polypeptide binding]; other site 205922007043 catalytic residue [active] 205922007044 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 205922007045 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 205922007046 N-terminal plug; other site 205922007047 ligand-binding site [chemical binding]; other site 205922007048 Cupin domain; Region: Cupin_2; cl09118 205922007049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007050 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922007051 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 205922007052 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 205922007053 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 205922007054 putative alpha subunit interface [polypeptide binding]; other site 205922007055 putative active site [active] 205922007056 putative substrate binding site [chemical binding]; other site 205922007057 Fe binding site [ion binding]; other site 205922007058 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 205922007059 inter-subunit interface; other site 205922007060 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 205922007061 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 205922007062 catalytic loop [active] 205922007063 iron binding site [ion binding]; other site 205922007064 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 205922007065 FAD binding pocket [chemical binding]; other site 205922007066 FAD binding motif [chemical binding]; other site 205922007067 phosphate binding motif [ion binding]; other site 205922007068 beta-alpha-beta structure motif; other site 205922007069 NAD binding pocket [chemical binding]; other site 205922007070 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 205922007071 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922007072 putative NAD(P) binding site [chemical binding]; other site 205922007073 active site 205922007074 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 205922007075 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 205922007076 octamer interface [polypeptide binding]; other site 205922007077 active site 205922007078 Muconolactone delta-isomerase; Region: MIase; cl01992 205922007079 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 205922007080 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 205922007081 dimer interface [polypeptide binding]; other site 205922007082 active site 205922007083 Protein of unknown function (DUF796); Region: DUF796; cl01226 205922007084 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922007085 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922007086 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922007087 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 205922007088 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 205922007089 RHS Repeat; Region: RHS_repeat; cl11982 205922007090 RHS Repeat; Region: RHS_repeat; cl11982 205922007091 RHS Repeat; Region: RHS_repeat; cl11982 205922007092 RHS Repeat; Region: RHS_repeat; cl11982 205922007093 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922007094 RHS Repeat; Region: RHS_repeat; cl11982 205922007095 RHS Repeat; Region: RHS_repeat; cl11982 205922007096 RHS Repeat; Region: RHS_repeat; cl11982 205922007097 RHS protein; Region: RHS; pfam03527 205922007098 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922007099 PAAR motif; Region: PAAR_motif; cl15808 205922007100 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 205922007101 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 205922007102 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922007103 NMT1-like family; Region: NMT1_2; cl15260 205922007104 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922007105 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 205922007106 Walker A/P-loop; other site 205922007107 ATP binding site [chemical binding]; other site 205922007108 Q-loop/lid; other site 205922007109 ABC transporter signature motif; other site 205922007110 Walker B; other site 205922007111 D-loop; other site 205922007112 H-loop/switch region; other site 205922007113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922007114 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 205922007115 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 205922007116 Walker A/P-loop; other site 205922007117 ATP binding site [chemical binding]; other site 205922007118 Q-loop/lid; other site 205922007119 ABC transporter signature motif; other site 205922007120 Walker B; other site 205922007121 D-loop; other site 205922007122 H-loop/switch region; other site 205922007123 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 205922007124 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205922007125 TM-ABC transporter signature motif; other site 205922007126 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 205922007127 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 205922007128 putative ligand binding site [chemical binding]; other site 205922007129 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 205922007130 Moco binding site; other site 205922007131 metal coordination site [ion binding]; other site 205922007132 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 205922007133 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 205922007134 N-terminal plug; other site 205922007135 ligand-binding site [chemical binding]; other site 205922007136 Spore germination protein; Region: Spore_permease; cl15802 205922007137 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 205922007138 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 205922007139 non-specific DNA binding site [nucleotide binding]; other site 205922007140 salt bridge; other site 205922007141 sequence-specific DNA binding site [nucleotide binding]; other site 205922007142 Cupin domain; Region: Cupin_2; cl09118 205922007143 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 205922007144 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 205922007145 putative NAD(P) binding site [chemical binding]; other site 205922007146 putative substrate binding site [chemical binding]; other site 205922007147 catalytic Zn binding site [ion binding]; other site 205922007148 structural Zn binding site [ion binding]; other site 205922007149 dimer interface [polypeptide binding]; other site 205922007150 Protein of unknown function (DUF419); Region: DUF419; cl15265 205922007151 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 205922007152 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 205922007153 FeS/SAM binding site; other site 205922007154 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 205922007155 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 205922007156 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 205922007157 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 205922007158 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 205922007159 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 205922007160 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 205922007161 transcriptional activator TtdR; Provisional; Region: PRK09801 205922007162 Helix-turn-helix domains; Region: HTH; cl00088 205922007163 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 205922007164 putative effector binding pocket; other site 205922007165 putative dimerization interface [polypeptide binding]; other site 205922007166 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 205922007167 substrate binding site [chemical binding]; other site 205922007168 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 205922007169 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 205922007170 substrate binding site [chemical binding]; other site 205922007171 ligand binding site [chemical binding]; other site 205922007172 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922007173 Helix-turn-helix domains; Region: HTH; cl00088 205922007174 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 205922007175 putative effector binding pocket; other site 205922007176 putative dimerization interface [polypeptide binding]; other site 205922007177 Helix-turn-helix domains; Region: HTH; cl00088 205922007178 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922007179 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 205922007180 putative effector binding pocket; other site 205922007181 dimerization interface [polypeptide binding]; other site 205922007182 choline dehydrogenase; Validated; Region: PRK02106 205922007183 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922007184 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922007185 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 205922007186 NAD(P) binding site [chemical binding]; other site 205922007187 catalytic residues [active] 205922007188 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 205922007189 putative heme binding pocket [chemical binding]; other site 205922007190 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 205922007191 non-specific DNA binding site [nucleotide binding]; other site 205922007192 salt bridge; other site 205922007193 sequence-specific DNA binding site [nucleotide binding]; other site 205922007194 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 205922007195 homotrimer interaction site [polypeptide binding]; other site 205922007196 putative active site [active] 205922007197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007198 Helix-turn-helix domains; Region: HTH; cl00088 205922007199 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 205922007200 putative effector binding pocket; other site 205922007201 putative dimerization interface [polypeptide binding]; other site 205922007202 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922007203 Helix-turn-helix domains; Region: HTH; cl00088 205922007204 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 205922007205 dimerization interface [polypeptide binding]; other site 205922007206 agmatine deiminase; Region: agmatine_aguA; TIGR03380 205922007207 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 205922007208 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 205922007209 N-carbamolyputrescine amidase; Region: PLN02747 205922007210 putative active site; other site 205922007211 catalytic triad [active] 205922007212 putative dimer interface [polypeptide binding]; other site 205922007213 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922007214 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 205922007215 agmatine deiminase; Region: agmatine_aguA; TIGR03380 205922007216 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 205922007217 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 205922007218 homotrimer interaction site [polypeptide binding]; other site 205922007219 putative active site [active] 205922007220 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 205922007221 CoenzymeA binding site [chemical binding]; other site 205922007222 subunit interaction site [polypeptide binding]; other site 205922007223 PHB binding site; other site 205922007224 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922007225 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 205922007226 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 205922007227 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 205922007228 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922007229 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922007230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007231 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922007232 putative substrate translocation pore; other site 205922007233 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922007234 Protein of unknown function DUF72; Region: DUF72; cl00777 205922007235 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 205922007236 homotrimer interaction site [polypeptide binding]; other site 205922007237 putative active site [active] 205922007238 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 205922007239 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 205922007240 Peptidase family U32; Region: Peptidase_U32; cl03113 205922007241 Collagenase; Region: DUF3656; pfam12392 205922007242 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922007243 putative substrate translocation pore; other site 205922007244 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922007245 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 205922007246 conserved cys residue [active] 205922007247 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922007248 Cupin domain; Region: Cupin_2; cl09118 205922007249 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922007250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007251 LysE type translocator; Region: LysE; cl00565 205922007252 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922007253 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 205922007254 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 205922007255 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 205922007256 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922007257 Outer membrane efflux protein; Region: OEP; pfam02321 205922007258 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 205922007259 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007260 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 205922007261 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922007262 Low molecular weight phosphatase family; Region: LMWPc; cd00115 205922007263 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 205922007264 active site 205922007265 arsenical pump membrane protein; Provisional; Region: PRK15445 205922007266 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 205922007267 transmembrane helices; other site 205922007268 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 205922007269 dimerization interface [polypeptide binding]; other site 205922007270 putative DNA binding site [nucleotide binding]; other site 205922007271 putative Zn2+ binding site [ion binding]; other site 205922007272 LysE type translocator; Region: LysE; cl00565 205922007273 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 205922007274 active site 205922007275 metal binding site [ion binding]; metal-binding site 205922007276 homotetramer interface [polypeptide binding]; other site 205922007277 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 205922007278 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 205922007279 NmrA-like family; Region: NmrA; pfam05368 205922007280 NAD(P) binding site [chemical binding]; other site 205922007281 active site lysine 205922007282 Helix-turn-helix domains; Region: HTH; cl00088 205922007283 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922007284 Helix-turn-helix domains; Region: HTH; cl00088 205922007285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922007286 Coenzyme A binding pocket [chemical binding]; other site 205922007287 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922007288 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 205922007289 dimerization interface [polypeptide binding]; other site 205922007290 putative catalytic residue [active] 205922007291 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 205922007292 dimer interface [polypeptide binding]; other site 205922007293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922007294 ligand binding site [chemical binding]; other site 205922007295 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 205922007296 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922007297 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922007298 LabA_like proteins; Region: LabA_like; cd06167 205922007299 putative metal binding site [ion binding]; other site 205922007300 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922007301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007302 Helix-turn-helix domains; Region: HTH; cl00088 205922007303 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 205922007304 putative effector binding pocket; other site 205922007305 dimerization interface [polypeptide binding]; other site 205922007306 glutathione S-transferase; Provisional; Region: PRK15113 205922007307 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 205922007308 C-terminal domain interface [polypeptide binding]; other site 205922007309 GSH binding site (G-site) [chemical binding]; other site 205922007310 dimer interface [polypeptide binding]; other site 205922007311 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 205922007312 N-terminal domain interface [polypeptide binding]; other site 205922007313 putative dimer interface [polypeptide binding]; other site 205922007314 putative substrate binding pocket (H-site) [chemical binding]; other site 205922007315 Inclusion body protein; Region: PixA; pfam12306 205922007316 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 205922007317 AAA domain; Region: AAA_23; pfam13476 205922007318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007319 Walker A/P-loop; other site 205922007320 ATP binding site [chemical binding]; other site 205922007321 Q-loop/lid; other site 205922007322 AAA domain; Region: AAA_13; pfam13166 205922007323 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007324 ABC transporter signature motif; other site 205922007325 Walker B; other site 205922007326 D-loop; other site 205922007327 H-loop/switch region; other site 205922007328 FRG domain; Region: FRG; cl07460 205922007329 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 205922007330 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922007331 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 205922007332 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 205922007333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007334 Walker A/P-loop; other site 205922007335 ATP binding site [chemical binding]; other site 205922007336 Q-loop/lid; other site 205922007337 ABC transporter signature motif; other site 205922007338 Walker B; other site 205922007339 D-loop; other site 205922007340 H-loop/switch region; other site 205922007341 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 205922007342 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 205922007343 substrate binding pocket [chemical binding]; other site 205922007344 membrane-bound complex binding site; other site 205922007345 hinge residues; other site 205922007346 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 205922007347 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 205922007348 potential catalytic triad [active] 205922007349 conserved cys residue [active] 205922007350 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922007351 Helix-turn-helix domains; Region: HTH; cl00088 205922007352 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 205922007353 putative effector binding pocket; other site 205922007354 dimerization interface [polypeptide binding]; other site 205922007355 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 205922007356 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922007357 putative NAD(P) binding site [chemical binding]; other site 205922007358 substrate binding site [chemical binding]; other site 205922007359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007360 Helix-turn-helix domains; Region: HTH; cl00088 205922007361 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 205922007362 putative effector binding pocket; other site 205922007363 putative dimerization interface [polypeptide binding]; other site 205922007364 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 205922007365 classical (c) SDRs; Region: SDR_c; cd05233 205922007366 NAD(P) binding site [chemical binding]; other site 205922007367 active site 205922007368 primosome assembly protein PriA; Validated; Region: PRK05580 205922007369 Paraquat-inducible protein A; Region: PqiA; pfam04403 205922007370 Paraquat-inducible protein A; Region: PqiA; pfam04403 205922007371 glutathionine S-transferase; Provisional; Region: PRK10542 205922007372 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 205922007373 C-terminal domain interface [polypeptide binding]; other site 205922007374 GSH binding site (G-site) [chemical binding]; other site 205922007375 dimer interface [polypeptide binding]; other site 205922007376 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 205922007377 dimer interface [polypeptide binding]; other site 205922007378 N-terminal domain interface [polypeptide binding]; other site 205922007379 substrate binding pocket (H-site) [chemical binding]; other site 205922007380 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922007381 Helix-turn-helix domains; Region: HTH; cl00088 205922007382 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 205922007383 dimerization interface [polypeptide binding]; other site 205922007384 substrate binding pocket [chemical binding]; other site 205922007385 Cupin domain; Region: Cupin_2; cl09118 205922007386 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 205922007387 FMN binding site [chemical binding]; other site 205922007388 active site 205922007389 substrate binding site [chemical binding]; other site 205922007390 catalytic residue [active] 205922007391 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922007392 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922007393 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922007394 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922007395 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 205922007396 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 205922007397 catalytic loop [active] 205922007398 iron binding site [ion binding]; other site 205922007399 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922007400 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922007401 Cytochrome c; Region: Cytochrom_C; cl11414 205922007402 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922007403 Cytochrome c; Region: Cytochrom_C; cl11414 205922007404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922007405 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 205922007406 transcriptional regulator; Provisional; Region: PRK10632 205922007407 Helix-turn-helix domains; Region: HTH; cl00088 205922007408 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 205922007409 putative effector binding pocket; other site 205922007410 dimerization interface [polypeptide binding]; other site 205922007411 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 205922007412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922007413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007414 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007415 active site 205922007416 phosphorylation site [posttranslational modification] 205922007417 intermolecular recognition site; other site 205922007418 dimerization interface [polypeptide binding]; other site 205922007419 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922007420 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922007421 conserved cys residue [active] 205922007422 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922007423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007424 active site 205922007425 phosphorylation site [posttranslational modification] 205922007426 intermolecular recognition site; other site 205922007427 dimerization interface [polypeptide binding]; other site 205922007428 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922007429 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 205922007430 conserved cys residue [active] 205922007431 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 205922007432 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 205922007433 putative active site [active] 205922007434 heme pocket [chemical binding]; other site 205922007435 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 205922007436 dimer interface [polypeptide binding]; other site 205922007437 phosphorylation site [posttranslational modification] 205922007438 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922007439 ATP binding site [chemical binding]; other site 205922007440 Mg2+ binding site [ion binding]; other site 205922007441 G-X-G motif; other site 205922007442 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 205922007443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007444 active site 205922007445 phosphorylation site [posttranslational modification] 205922007446 intermolecular recognition site; other site 205922007447 dimerization interface [polypeptide binding]; other site 205922007448 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 205922007449 DNA binding residues [nucleotide binding] 205922007450 dimerization interface [polypeptide binding]; other site 205922007451 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 205922007452 Helix-turn-helix domains; Region: HTH; cl00088 205922007453 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 205922007454 putative substrate binding pocket [chemical binding]; other site 205922007455 putative dimerization interface [polypeptide binding]; other site 205922007456 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922007457 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922007458 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922007459 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 205922007460 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 205922007461 N-terminal plug; other site 205922007462 ligand-binding site [chemical binding]; other site 205922007463 OsmC-like protein; Region: OsmC; cl00767 205922007464 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 205922007465 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922007466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007467 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 205922007468 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 205922007469 classical (c) SDRs; Region: SDR_c; cd05233 205922007470 NAD(P) binding site [chemical binding]; other site 205922007471 active site 205922007472 Cupin domain; Region: Cupin_2; cl09118 205922007473 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922007474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007475 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 205922007476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922007477 NAD(P) binding site [chemical binding]; other site 205922007478 active site 205922007479 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922007480 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 205922007481 Cytochrome c; Region: Cytochrom_C; cl11414 205922007482 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922007483 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922007484 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922007485 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922007486 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 205922007487 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 205922007488 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922007489 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 205922007490 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922007491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922007493 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922007494 putative substrate translocation pore; other site 205922007495 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922007496 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 205922007497 putative NAD(P) binding site [chemical binding]; other site 205922007498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922007499 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922007500 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 205922007501 classical (c) SDRs; Region: SDR_c; cd05233 205922007502 NAD(P) binding site [chemical binding]; other site 205922007503 active site 205922007504 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 205922007505 FMN binding site [chemical binding]; other site 205922007506 active site 205922007507 substrate binding site [chemical binding]; other site 205922007508 catalytic residue [active] 205922007509 Helix-turn-helix domains; Region: HTH; cl00088 205922007510 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922007511 Helix-turn-helix domains; Region: HTH; cl00088 205922007512 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922007513 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922007514 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922007515 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007516 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 205922007517 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922007518 YccA-like proteins; Region: YccA_like; cd10433 205922007519 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 205922007520 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 205922007521 Helix-turn-helix domains; Region: HTH; cl00088 205922007522 AsnC family; Region: AsnC_trans_reg; pfam01037 205922007523 Predicted permeases [General function prediction only]; Region: RarD; COG2962 205922007524 EamA-like transporter family; Region: EamA; cl01037 205922007525 EamA-like transporter family; Region: EamA; cl01037 205922007526 Predicted membrane protein [Function unknown]; Region: COG1289 205922007527 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 205922007528 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 205922007529 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922007530 tetrameric interface [polypeptide binding]; other site 205922007531 activator binding site; other site 205922007532 NADP binding site [chemical binding]; other site 205922007533 substrate binding site [chemical binding]; other site 205922007534 catalytic residues [active] 205922007535 Cytochrome c; Region: Cytochrom_C; cl11414 205922007536 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 205922007537 FAD binding domain; Region: FAD_binding_4; pfam01565 205922007538 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 205922007539 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 205922007540 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 205922007541 dimer interface [polypeptide binding]; other site 205922007542 active site 205922007543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922007544 substrate binding site [chemical binding]; other site 205922007545 catalytic residue [active] 205922007546 DDE superfamily endonuclease; Region: DDE_4; cl15789 205922007547 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922007548 Surface antigen; Region: Bac_surface_Ag; cl03097 205922007549 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 205922007550 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 205922007551 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922007552 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205922007553 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922007554 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 205922007555 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 205922007556 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922007557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007558 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 205922007559 putative acetyltransferase YhhY; Provisional; Region: PRK10140 205922007560 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922007561 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 205922007562 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 205922007563 Low-spin heme binding site [chemical binding]; other site 205922007564 Putative water exit pathway; other site 205922007565 Binuclear center (active site) [active] 205922007566 Putative proton exit pathway; other site 205922007567 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 205922007568 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922007569 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922007570 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 205922007571 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 205922007572 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 205922007573 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 205922007574 YCII-related domain; Region: YCII; cl00999 205922007575 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 205922007576 dimer interface [polypeptide binding]; other site 205922007577 catalytic triad [active] 205922007578 peroxidatic and resolving cysteines [active] 205922007579 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 205922007580 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007581 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007582 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 205922007583 Protein export membrane protein; Region: SecD_SecF; cl14618 205922007584 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 205922007585 Protein export membrane protein; Region: SecD_SecF; cl14618 205922007586 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922007587 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 205922007588 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 205922007589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922007590 metal binding site [ion binding]; metal-binding site 205922007591 active site 205922007592 I-site; other site 205922007593 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 205922007594 short chain dehydrogenase; Provisional; Region: PRK06123 205922007595 classical (c) SDRs; Region: SDR_c; cd05233 205922007596 NAD(P) binding site [chemical binding]; other site 205922007597 active site 205922007598 Galactose oxidase, central domain; Region: Kelch_3; cl02701 205922007599 Galactose oxidase, central domain; Region: Kelch_3; cl02701 205922007600 Galactose oxidase, central domain; Region: Kelch_3; cl02701 205922007601 Galactose oxidase, central domain; Region: Kelch_3; cl02701 205922007602 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 205922007603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922007604 DNA-binding site [nucleotide binding]; DNA binding site 205922007605 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 205922007606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922007607 homodimer interface [polypeptide binding]; other site 205922007608 catalytic residue [active] 205922007609 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 205922007610 4Fe-4S binding domain; Region: Fer4_5; pfam12801 205922007611 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 205922007612 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 205922007613 MgtC family; Region: MgtC; pfam02308 205922007614 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 205922007615 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 205922007616 active site 205922007617 homodimer interface [polypeptide binding]; other site 205922007618 catalytic site [active] 205922007619 acceptor binding site [chemical binding]; other site 205922007620 trehalose synthase; Region: treS_nterm; TIGR02456 205922007621 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 205922007622 active site 205922007623 catalytic site [active] 205922007624 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 205922007625 glycogen branching enzyme; Provisional; Region: PRK05402 205922007626 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 205922007627 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 205922007628 active site 205922007629 catalytic site [active] 205922007630 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 205922007631 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922007632 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 205922007633 putative catalytic site [active] 205922007634 putative metal binding site [ion binding]; other site 205922007635 putative phosphate binding site [ion binding]; other site 205922007636 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 205922007637 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 205922007638 active site 205922007639 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 205922007640 S-adenosylmethionine binding site [chemical binding]; other site 205922007641 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 205922007642 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922007643 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 205922007644 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 205922007645 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 205922007646 active site 205922007647 catalytic site [active] 205922007648 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 205922007649 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 205922007650 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 205922007651 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 205922007652 active site 205922007653 catalytic site [active] 205922007654 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 205922007655 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 205922007656 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 205922007657 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 205922007658 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 205922007659 catalytic site [active] 205922007660 active site 205922007661 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 205922007662 glycogen synthase; Provisional; Region: glgA; PRK00654 205922007663 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 205922007664 ADP-binding pocket [chemical binding]; other site 205922007665 homodimer interface [polypeptide binding]; other site 205922007666 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 205922007667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922007668 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922007669 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922007670 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 205922007671 Protein of unknown function, DUF; Region: DUF411; cl01142 205922007672 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922007673 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922007674 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922007675 dimer interface [polypeptide binding]; other site 205922007676 putative CheW interface [polypeptide binding]; other site 205922007677 Predicted acetyltransferase [General function prediction only]; Region: COG3153 205922007678 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922007679 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 205922007680 AMP-binding enzyme; Region: AMP-binding; cl15778 205922007681 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 205922007682 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 205922007683 putative catalytic cysteine [active] 205922007684 AMP-binding enzyme; Region: AMP-binding; cl15778 205922007685 AMP-binding enzyme; Region: AMP-binding; cl15778 205922007686 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 205922007687 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922007688 Helix-turn-helix domains; Region: HTH; cl00088 205922007689 Penicillin amidase; Region: Penicil_amidase; pfam01804 205922007690 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 205922007691 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 205922007692 active site 205922007693 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 205922007694 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922007695 FecR protein; Region: FecR; pfam04773 205922007696 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 205922007697 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 205922007698 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 205922007699 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007700 Helix-turn-helix domains; Region: HTH; cl00088 205922007701 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 205922007702 putative substrate binding pocket [chemical binding]; other site 205922007703 putative dimerization interface [polypeptide binding]; other site 205922007704 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 205922007705 Predicted amidohydrolase [General function prediction only]; Region: COG0388 205922007706 putative active site [active] 205922007707 catalytic triad [active] 205922007708 putative dimer interface [polypeptide binding]; other site 205922007709 Late embryogenesis abundant protein; Region: LEA_2; cl12118 205922007710 xanthine permease; Region: pbuX; TIGR03173 205922007711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007712 Helix-turn-helix domains; Region: HTH; cl00088 205922007713 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 205922007714 dimerization interface [polypeptide binding]; other site 205922007715 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922007716 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 205922007717 Arginase family; Region: Arginase; cl00306 205922007718 Helix-turn-helix domains; Region: HTH; cl00088 205922007719 WYL domain; Region: WYL; cl14852 205922007720 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 205922007721 Predicted ATPase [General function prediction only]; Region: COG1485 205922007722 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 205922007723 DinB superfamily; Region: DinB_2; pfam12867 205922007724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922007725 Coenzyme A binding pocket [chemical binding]; other site 205922007726 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 205922007727 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 205922007728 N-terminal plug; other site 205922007729 ligand-binding site [chemical binding]; other site 205922007730 hypothetical protein; Provisional; Region: PRK10649 205922007731 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 205922007732 Sulfatase; Region: Sulfatase; cl10460 205922007733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922007734 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 205922007735 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 205922007736 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 205922007737 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 205922007738 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 205922007739 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 205922007740 active site 205922007741 motif I; other site 205922007742 motif II; other site 205922007743 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922007744 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 205922007745 transmembrane helices; other site 205922007746 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 205922007747 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 205922007748 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 205922007749 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 205922007750 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922007751 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 205922007752 Walker A motif; other site 205922007753 ATP binding site [chemical binding]; other site 205922007754 Walker B motif; other site 205922007755 arginine finger; other site 205922007756 Helix-turn-helix domains; Region: HTH; cl00088 205922007757 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 205922007758 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39G; cd02423 205922007759 putative active site [active] 205922007760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007761 AAA domain; Region: AAA_28; pfam13521 205922007762 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 205922007763 Cache domain; Region: Cache_2; cl07034 205922007764 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 205922007765 dimerization interface [polypeptide binding]; other site 205922007766 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922007767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922007768 dimer interface [polypeptide binding]; other site 205922007769 putative CheW interface [polypeptide binding]; other site 205922007770 Bacitracin resistance protein BacA; Region: BacA; cl00858 205922007771 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 205922007772 Protein of unknown function (DUF419); Region: DUF419; cl15265 205922007773 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922007774 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 205922007775 dimerization interface [polypeptide binding]; other site 205922007776 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922007777 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 205922007778 major facilitator superfamily transporter; Provisional; Region: PRK05122 205922007779 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 205922007780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007781 Walker A/P-loop; other site 205922007782 ATP binding site [chemical binding]; other site 205922007783 Q-loop/lid; other site 205922007784 ABC transporter signature motif; other site 205922007785 Walker B; other site 205922007786 D-loop; other site 205922007787 H-loop/switch region; other site 205922007788 ABC transporter; Region: ABC_tran_2; pfam12848 205922007789 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922007790 OpgC protein; Region: OpgC_C; cl00792 205922007791 Cupin domain; Region: Cupin_2; cl09118 205922007792 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 205922007793 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 205922007794 putative DNA binding site [nucleotide binding]; other site 205922007795 putative homodimer interface [polypeptide binding]; other site 205922007796 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 205922007797 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 205922007798 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 205922007799 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922007800 Coenzyme A binding pocket [chemical binding]; other site 205922007801 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 205922007802 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 205922007803 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 205922007804 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922007805 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 205922007806 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 205922007807 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 205922007808 tetramer interface [polypeptide binding]; other site 205922007809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922007810 catalytic residue [active] 205922007811 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 205922007812 secondary substrate binding site; other site 205922007813 primary substrate binding site; other site 205922007814 inhibition loop; other site 205922007815 dimerization interface [polypeptide binding]; other site 205922007816 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 205922007817 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922007818 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 205922007819 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 205922007820 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 205922007821 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922007822 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922007823 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922007824 outer membrane porin, OprD family; Region: OprD; pfam03573 205922007825 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922007826 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922007827 catalytic residue [active] 205922007828 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205922007829 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 205922007830 putative substrate binding site [chemical binding]; other site 205922007831 putative ATP binding site [chemical binding]; other site 205922007832 D-xylulose kinases, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 205922007833 N- and C-terminal domain interface [polypeptide binding]; other site 205922007834 D-xylulose kinase; Region: XylB; TIGR01312 205922007835 active site 205922007836 catalytic site [active] 205922007837 metal binding site [ion binding]; metal-binding site 205922007838 xylulose binding site [chemical binding]; other site 205922007839 ATP binding site [chemical binding]; other site 205922007840 putative homodimer interface [polypeptide binding]; other site 205922007841 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 205922007842 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 205922007843 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 205922007844 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 205922007845 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 205922007846 Walker A/P-loop; other site 205922007847 ATP binding site [chemical binding]; other site 205922007848 Q-loop/lid; other site 205922007849 ABC transporter signature motif; other site 205922007850 Walker B; other site 205922007851 D-loop; other site 205922007852 H-loop/switch region; other site 205922007853 TOBE domain; Region: TOBE_2; cl01440 205922007854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922007855 dimer interface [polypeptide binding]; other site 205922007856 conserved gate region; other site 205922007857 putative PBP binding loops; other site 205922007858 ABC-ATPase subunit interface; other site 205922007859 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 205922007860 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922007861 dimer interface [polypeptide binding]; other site 205922007862 conserved gate region; other site 205922007863 putative PBP binding loops; other site 205922007864 ABC-ATPase subunit interface; other site 205922007865 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 205922007866 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 205922007867 Cupin domain; Region: Cupin_2; cl09118 205922007868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007869 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922007870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922007871 Catalytic domain of bacterial phosphatidylinositol-specific phospholipase C and similar proteins; Region: PI-PLCc_bacteria_like; cd08557 205922007872 active site 205922007873 catalytic site [active] 205922007874 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922007875 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 205922007876 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007878 active site 205922007879 phosphorylation site [posttranslational modification] 205922007880 intermolecular recognition site; other site 205922007881 dimerization interface [polypeptide binding]; other site 205922007882 CHASE3 domain; Region: CHASE3; cl05000 205922007883 GAF domain; Region: GAF_2; pfam13185 205922007884 GAF domain; Region: GAF; cl15785 205922007885 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 205922007886 dimer interface [polypeptide binding]; other site 205922007887 phosphorylation site [posttranslational modification] 205922007888 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922007889 ATP binding site [chemical binding]; other site 205922007890 Mg2+ binding site [ion binding]; other site 205922007891 G-X-G motif; other site 205922007892 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007894 active site 205922007895 phosphorylation site [posttranslational modification] 205922007896 intermolecular recognition site; other site 205922007897 dimerization interface [polypeptide binding]; other site 205922007898 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 205922007899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007900 active site 205922007901 phosphorylation site [posttranslational modification] 205922007902 intermolecular recognition site; other site 205922007903 dimerization interface [polypeptide binding]; other site 205922007904 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007906 active site 205922007907 phosphorylation site [posttranslational modification] 205922007908 intermolecular recognition site; other site 205922007909 dimerization interface [polypeptide binding]; other site 205922007910 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 205922007911 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 205922007912 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922007913 CheB methylesterase; Region: CheB_methylest; pfam01339 205922007914 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007916 active site 205922007917 phosphorylation site [posttranslational modification] 205922007918 intermolecular recognition site; other site 205922007919 dimerization interface [polypeptide binding]; other site 205922007920 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 205922007921 dimer interface [polypeptide binding]; other site 205922007922 phosphorylation site [posttranslational modification] 205922007923 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922007924 ATP binding site [chemical binding]; other site 205922007925 Mg2+ binding site [ion binding]; other site 205922007926 G-X-G motif; other site 205922007927 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007929 active site 205922007930 phosphorylation site [posttranslational modification] 205922007931 intermolecular recognition site; other site 205922007932 dimerization interface [polypeptide binding]; other site 205922007933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922007934 dimer interface [polypeptide binding]; other site 205922007935 phosphorylation site [posttranslational modification] 205922007936 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922007937 ATP binding site [chemical binding]; other site 205922007938 Mg2+ binding site [ion binding]; other site 205922007939 G-X-G motif; other site 205922007940 Response regulator receiver domain; Region: Response_reg; pfam00072 205922007941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922007942 active site 205922007943 phosphorylation site [posttranslational modification] 205922007944 intermolecular recognition site; other site 205922007945 dimerization interface [polypeptide binding]; other site 205922007946 circadian clock protein KaiC; Reviewed; Region: PRK09302 205922007947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007948 Walker A motif; other site 205922007949 ATP binding site [chemical binding]; other site 205922007950 Walker B motif; other site 205922007951 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007953 Walker A motif; other site 205922007954 Walker A motif; other site 205922007955 ATP binding site [chemical binding]; other site 205922007956 Walker B motif; other site 205922007957 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 205922007958 Fusaric acid resistance protein family; Region: FUSC; pfam04632 205922007959 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 205922007960 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 205922007961 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007962 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007963 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922007964 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 205922007965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922007966 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007967 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922007968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007969 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 205922007970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007971 G1 box; other site 205922007972 GTP/Mg2+ binding site [chemical binding]; other site 205922007973 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 205922007974 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 205922007975 G2 box; other site 205922007976 Switch I region; other site 205922007977 G3 box; other site 205922007978 Switch II region; other site 205922007979 GTP/Mg2+ binding site [chemical binding]; other site 205922007980 G4 box; other site 205922007981 G5 box; other site 205922007982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922007983 G1 box; other site 205922007984 GTP/Mg2+ binding site [chemical binding]; other site 205922007985 G2 box; other site 205922007986 Switch I region; other site 205922007987 G3 box; other site 205922007988 Switch II region; other site 205922007989 G4 box; other site 205922007990 G5 box; other site 205922007991 Protein of unknown function (DUF726); Region: DUF726; pfam05277 205922007992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922007993 Helix-turn-helix domains; Region: HTH; cl00088 205922007994 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 205922007995 putative substrate binding pocket [chemical binding]; other site 205922007996 putative dimerization interface [polypeptide binding]; other site 205922007997 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 205922007998 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922007999 putative NAD(P) binding site [chemical binding]; other site 205922008000 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 205922008001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922008002 DNA-binding site [nucleotide binding]; DNA binding site 205922008003 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 205922008004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922008005 homodimer interface [polypeptide binding]; other site 205922008006 catalytic residue [active] 205922008007 phosphoglucomutase; Validated; Region: PRK07564 205922008008 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 205922008009 active site 205922008010 substrate binding site [chemical binding]; other site 205922008011 metal binding site [ion binding]; metal-binding site 205922008012 Pirin-related protein [General function prediction only]; Region: COG1741 205922008013 Cupin domain; Region: Cupin_2; cl09118 205922008014 flagellar assembly protein H; Validated; Region: fliH; PRK05687 205922008015 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 205922008016 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 205922008017 Family description; Region: UvrD_C_2; cl15862 205922008018 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 205922008019 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 205922008020 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922008021 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922008022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008023 FAD dependent oxidoreductase; Region: DAO; pfam01266 205922008024 Cupin domain; Region: Cupin_2; cl09118 205922008025 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922008026 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 205922008027 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 205922008028 active site 205922008029 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922008030 Protease inhibitor Inh; Region: Inh; pfam02974 205922008031 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 205922008032 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 205922008033 Walker A/P-loop; other site 205922008034 ATP binding site [chemical binding]; other site 205922008035 Q-loop/lid; other site 205922008036 ABC transporter signature motif; other site 205922008037 Walker B; other site 205922008038 D-loop; other site 205922008039 H-loop/switch region; other site 205922008040 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 205922008041 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922008042 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922008043 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 205922008044 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 205922008045 catalytic triad [active] 205922008046 putative active site [active] 205922008047 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922008048 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 205922008049 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 205922008050 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922008051 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 205922008052 catalytic triad [active] 205922008053 putative active site [active] 205922008054 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922008055 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922008056 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 205922008057 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922008058 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 205922008059 nucleophilic elbow; other site 205922008060 catalytic triad; other site 205922008061 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922008062 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 205922008063 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 205922008064 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 205922008065 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 205922008066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922008067 DEAD_2; Region: DEAD_2; pfam06733 205922008068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922008069 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 205922008070 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 205922008071 putative active site [active] 205922008072 heme pocket [chemical binding]; other site 205922008073 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 205922008074 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 205922008075 putative active site [active] 205922008076 heme pocket [chemical binding]; other site 205922008077 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 205922008078 dimer interface [polypeptide binding]; other site 205922008079 phosphorylation site [posttranslational modification] 205922008080 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922008081 ATP binding site [chemical binding]; other site 205922008082 Mg2+ binding site [ion binding]; other site 205922008083 G-X-G motif; other site 205922008084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922008085 active site 205922008086 phosphorylation site [posttranslational modification] 205922008087 intermolecular recognition site; other site 205922008088 dimerization interface [polypeptide binding]; other site 205922008089 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 205922008090 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922008091 Yip1 domain; Region: Yip1; cl12048 205922008092 short chain dehydrogenase; Provisional; Region: PRK06701 205922008093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008094 NAD(P) binding site [chemical binding]; other site 205922008095 active site 205922008096 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 205922008097 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 205922008098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922008099 homodimer interface [polypeptide binding]; other site 205922008100 catalytic residue [active] 205922008101 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 205922008102 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 205922008103 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 205922008104 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 205922008105 molybdopterin cofactor binding site; other site 205922008106 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 205922008107 4Fe-4S binding domain; Region: Fer4; cl02805 205922008108 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 205922008109 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 205922008110 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 205922008111 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 205922008112 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 205922008113 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 205922008114 dimerization interface [polypeptide binding]; other site 205922008115 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 205922008116 dimer interface [polypeptide binding]; other site 205922008117 phosphorylation site [posttranslational modification] 205922008118 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922008119 ATP binding site [chemical binding]; other site 205922008120 Mg2+ binding site [ion binding]; other site 205922008121 G-X-G motif; other site 205922008122 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922008123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922008124 active site 205922008125 phosphorylation site [posttranslational modification] 205922008126 intermolecular recognition site; other site 205922008127 dimerization interface [polypeptide binding]; other site 205922008128 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 205922008129 DNA binding site [nucleotide binding] 205922008130 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 205922008131 selenocysteine synthase; Provisional; Region: PRK04311 205922008132 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 205922008133 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 205922008134 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 205922008135 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 205922008136 G1 box; other site 205922008137 putative GEF interaction site [polypeptide binding]; other site 205922008138 GTP/Mg2+ binding site [chemical binding]; other site 205922008139 Switch I region; other site 205922008140 G2 box; other site 205922008141 G3 box; other site 205922008142 Switch II region; other site 205922008143 G4 box; other site 205922008144 G5 box; other site 205922008145 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 205922008146 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 205922008147 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 205922008148 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 205922008149 outer membrane porin, OprD family; Region: OprD; pfam03573 205922008150 CHASE4 domain; Region: CHASE4; cl01308 205922008151 PAS domain S-box; Region: sensory_box; TIGR00229 205922008152 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 205922008153 putative active site [active] 205922008154 heme pocket [chemical binding]; other site 205922008155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922008156 metal binding site [ion binding]; metal-binding site 205922008157 active site 205922008158 I-site; other site 205922008159 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 205922008160 TIGR03549 family protein; Region: TIGR03549 205922008161 OsmC-like protein; Region: OsmC; cl00767 205922008162 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 205922008163 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 205922008164 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 205922008165 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 205922008166 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 205922008167 Trp docking motif [polypeptide binding]; other site 205922008168 putative active site [active] 205922008169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008170 Helix-turn-helix domains; Region: HTH; cl00088 205922008171 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 205922008172 putative effector binding pocket; other site 205922008173 dimerization interface [polypeptide binding]; other site 205922008174 Major royal jelly protein; Region: MRJP; pfam03022 205922008175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008176 NAD(P) binding site [chemical binding]; other site 205922008177 active site 205922008178 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 205922008179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008180 NAD(P) binding site [chemical binding]; other site 205922008181 active site 205922008182 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922008183 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922008184 conserved cys residue [active] 205922008185 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922008186 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 205922008187 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 205922008188 PYR/PP interface [polypeptide binding]; other site 205922008189 dimer interface [polypeptide binding]; other site 205922008190 TPP binding site [chemical binding]; other site 205922008191 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 205922008192 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 205922008193 TPP-binding site [chemical binding]; other site 205922008194 dimer interface [polypeptide binding]; other site 205922008195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008196 D-galactonate transporter; Region: 2A0114; TIGR00893 205922008197 putative substrate translocation pore; other site 205922008198 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922008199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008200 NAD(P) binding site [chemical binding]; other site 205922008201 active site 205922008202 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922008203 Helix-turn-helix domains; Region: HTH; cl00088 205922008204 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 205922008205 dimerization interface [polypeptide binding]; other site 205922008206 substrate binding pocket [chemical binding]; other site 205922008207 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 205922008208 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 205922008209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008210 Helix-turn-helix domains; Region: HTH; cl00088 205922008211 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 205922008212 dimerization interface [polypeptide binding]; other site 205922008213 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008214 putative substrate translocation pore; other site 205922008215 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922008216 classical (c) SDRs; Region: SDR_c; cd05233 205922008217 NAD(P) binding site [chemical binding]; other site 205922008218 active site 205922008219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008220 Helix-turn-helix domains; Region: HTH; cl00088 205922008221 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 205922008222 dimerization interface [polypeptide binding]; other site 205922008223 xanthine permease; Region: pbuX; TIGR03173 205922008224 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 205922008225 nucleoside/Zn binding site; other site 205922008226 dimer interface [polypeptide binding]; other site 205922008227 catalytic motif [active] 205922008228 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 205922008229 active site clefts [active] 205922008230 zinc binding site [ion binding]; other site 205922008231 dimer interface [polypeptide binding]; other site 205922008232 thiamine pyrophosphate protein; Provisional; Region: PRK08273 205922008233 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 205922008234 PYR/PP interface [polypeptide binding]; other site 205922008235 dimer interface [polypeptide binding]; other site 205922008236 tetramer interface [polypeptide binding]; other site 205922008237 TPP binding site [chemical binding]; other site 205922008238 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 205922008239 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 205922008240 TPP-binding site [chemical binding]; other site 205922008241 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 205922008242 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 205922008243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922008244 active site 205922008245 phosphorylation site [posttranslational modification] 205922008246 intermolecular recognition site; other site 205922008247 dimerization interface [polypeptide binding]; other site 205922008248 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 205922008249 DNA binding site [nucleotide binding] 205922008250 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922008251 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 205922008252 homotrimer interaction site [polypeptide binding]; other site 205922008253 putative active site [active] 205922008254 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 205922008255 Helix-turn-helix domains; Region: HTH; cl00088 205922008256 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 205922008257 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 205922008258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008259 Cytochrome c; Region: Cytochrom_C; cl11414 205922008260 Cytochrome c; Region: Cytochrom_C; cl11414 205922008261 Cytochrome c; Region: Cytochrom_C; cl11414 205922008262 Cytochrome c; Region: Cytochrom_C; cl11414 205922008263 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 205922008264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008265 FAD dependent oxidoreductase; Region: DAO; pfam01266 205922008266 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 205922008267 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 205922008268 active site 205922008269 acyl-CoA synthetase; Validated; Region: PRK06188 205922008270 AMP-binding enzyme; Region: AMP-binding; cl15778 205922008271 AMP-binding enzyme; Region: AMP-binding; cl15778 205922008272 Uncharacterized conserved protein [Function unknown]; Region: COG3268 205922008273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008274 NAD(P) binding site [chemical binding]; other site 205922008275 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922008276 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 205922008277 active site 205922008278 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 205922008279 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 205922008280 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 205922008281 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 205922008282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922008283 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922008284 classical (c) SDRs; Region: SDR_c; cd05233 205922008285 NAD(P) binding site [chemical binding]; other site 205922008286 active site 205922008287 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 205922008288 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 205922008289 substrate binding site [chemical binding]; other site 205922008290 oxyanion hole (OAH) forming residues; other site 205922008291 trimer interface [polypeptide binding]; other site 205922008292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008293 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922008294 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922008295 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922008296 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922008297 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 205922008298 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 205922008299 Protein export membrane protein; Region: SecD_SecF; cl14618 205922008300 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 205922008301 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922008302 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922008303 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922008304 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922008305 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922008306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922008307 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922008308 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922008309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922008310 GAF domain; Region: GAF; cl15785 205922008311 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 205922008312 dimer interface [polypeptide binding]; other site 205922008313 phosphorylation site [posttranslational modification] 205922008314 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922008315 ATP binding site [chemical binding]; other site 205922008316 Mg2+ binding site [ion binding]; other site 205922008317 G-X-G motif; other site 205922008318 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 205922008319 Helix-turn-helix domains; Region: HTH; cl00088 205922008320 Helix-turn-helix domains; Region: HTH; cl00088 205922008321 Integrase core domain; Region: rve; cl01316 205922008322 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 205922008323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008324 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 205922008325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008326 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922008327 Helix-turn-helix domains; Region: HTH; cl00088 205922008328 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 205922008329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008330 NAD(P) binding site [chemical binding]; other site 205922008331 active site 205922008332 Helix-turn-helix domains; Region: HTH; cl00088 205922008333 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 205922008334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008335 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 205922008336 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 205922008337 tetramer interface [polypeptide binding]; other site 205922008338 active site 205922008339 Mg2+/Mn2+ binding site [ion binding]; other site 205922008340 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922008341 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 205922008342 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 205922008343 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 205922008344 putative active site pocket [active] 205922008345 metal binding site [ion binding]; metal-binding site 205922008346 cell density-dependent motility repressor; Provisional; Region: PRK10082 205922008347 Helix-turn-helix domains; Region: HTH; cl00088 205922008348 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 205922008349 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 205922008350 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 205922008351 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 205922008352 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 205922008353 NMT1-like family; Region: NMT1_2; cl15260 205922008354 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 205922008355 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 205922008356 Walker A/P-loop; other site 205922008357 ATP binding site [chemical binding]; other site 205922008358 Q-loop/lid; other site 205922008359 ABC transporter signature motif; other site 205922008360 Walker B; other site 205922008361 D-loop; other site 205922008362 H-loop/switch region; other site 205922008363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922008364 dimer interface [polypeptide binding]; other site 205922008365 conserved gate region; other site 205922008366 ABC-ATPase subunit interface; other site 205922008367 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008368 Helix-turn-helix domains; Region: HTH; cl00088 205922008369 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 205922008370 putative effector binding pocket; other site 205922008371 putative dimerization interface [polypeptide binding]; other site 205922008372 short chain dehydrogenase; Provisional; Region: PRK06197 205922008373 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 205922008374 putative NAD(P) binding site [chemical binding]; other site 205922008375 active site 205922008376 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 205922008377 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 205922008378 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 205922008379 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 205922008380 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922008381 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 205922008382 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 205922008383 dimanganese center [ion binding]; other site 205922008384 Competence-damaged protein; Region: CinA; cl00666 205922008385 amino acid transporter; Region: 2A0306; TIGR00909 205922008386 Spore germination protein; Region: Spore_permease; cl15802 205922008387 DDE superfamily endonuclease; Region: DDE_4; cl15789 205922008388 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 205922008389 DDE superfamily endonuclease; Region: DDE_4; cl15789 205922008390 GntP family permease; Region: GntP_permease; pfam02447 205922008391 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 205922008392 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 205922008393 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 205922008394 active site 205922008395 benzoate transport; Region: 2A0115; TIGR00895 205922008396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008397 putative substrate translocation pore; other site 205922008398 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 205922008399 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922008400 DNA-binding site [nucleotide binding]; DNA binding site 205922008401 UTRA domain; Region: UTRA; cl01230 205922008402 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 205922008403 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 205922008404 active site 205922008405 non-prolyl cis peptide bond; other site 205922008406 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922008407 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922008408 dimer interface [polypeptide binding]; other site 205922008409 conserved gate region; other site 205922008410 putative PBP binding loops; other site 205922008411 ABC-ATPase subunit interface; other site 205922008412 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 205922008413 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922008414 substrate binding pocket [chemical binding]; other site 205922008415 membrane-bound complex binding site; other site 205922008416 hinge residues; other site 205922008417 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 205922008418 transcriptional regulator; Provisional; Region: PRK10632 205922008419 Helix-turn-helix domains; Region: HTH; cl00088 205922008420 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 205922008421 putative effector binding pocket; other site 205922008422 dimerization interface [polypeptide binding]; other site 205922008423 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922008424 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 205922008425 tetramerization interface [polypeptide binding]; other site 205922008426 NAD(P) binding site [chemical binding]; other site 205922008427 catalytic residues [active] 205922008428 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922008429 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 205922008430 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 205922008431 NAD(P) binding site [chemical binding]; other site 205922008432 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 205922008433 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 205922008434 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 205922008435 PAS domain S-box; Region: sensory_box; TIGR00229 205922008436 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 205922008437 putative active site [active] 205922008438 heme pocket [chemical binding]; other site 205922008439 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 205922008440 PAS fold; Region: PAS_3; pfam08447 205922008441 putative active site [active] 205922008442 heme pocket [chemical binding]; other site 205922008443 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 205922008444 PAS fold; Region: PAS_3; pfam08447 205922008445 putative active site [active] 205922008446 heme pocket [chemical binding]; other site 205922008447 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 205922008448 dimer interface [polypeptide binding]; other site 205922008449 phosphorylation site [posttranslational modification] 205922008450 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922008451 ATP binding site [chemical binding]; other site 205922008452 Mg2+ binding site [ion binding]; other site 205922008453 G-X-G motif; other site 205922008454 Response regulator receiver domain; Region: Response_reg; pfam00072 205922008455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922008456 active site 205922008457 phosphorylation site [posttranslational modification] 205922008458 intermolecular recognition site; other site 205922008459 dimerization interface [polypeptide binding]; other site 205922008460 TspO/MBR family; Region: TspO_MBR; cl01379 205922008461 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 205922008462 transcriptional activator RfaH; Region: RfaH; TIGR01955 205922008463 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922008464 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 205922008465 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 205922008466 SLBB domain; Region: SLBB; pfam10531 205922008467 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 205922008468 Chain length determinant protein; Region: Wzz; cl15801 205922008469 Chain length determinant protein; Region: Wzz; cl15801 205922008470 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 205922008471 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 205922008472 Nucleotide binding site [chemical binding]; other site 205922008473 P loop; other site 205922008474 DTAP/Switch II; other site 205922008475 Switch I; other site 205922008476 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 205922008477 Bacterial sugar transferase; Region: Bac_transf; cl00939 205922008478 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 205922008479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008480 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 205922008481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008482 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 205922008483 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922008484 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 205922008485 putative ADP-binding pocket [chemical binding]; other site 205922008486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922008487 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 205922008488 putative ADP-binding pocket [chemical binding]; other site 205922008489 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 205922008490 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 205922008491 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 205922008492 active site 205922008493 MatE; Region: MatE; cl10513 205922008494 UDP-glucose 4-epimerase; Region: PLN02240 205922008495 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 205922008496 NAD binding site [chemical binding]; other site 205922008497 homodimer interface [polypeptide binding]; other site 205922008498 active site 205922008499 substrate binding site [chemical binding]; other site 205922008500 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 205922008501 calcium binding site [ion binding]; other site 205922008502 active site 205922008503 catalytic residues [active] 205922008504 OpgC protein; Region: OpgC_C; cl00792 205922008505 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922008506 transcriptional regulator EutR; Provisional; Region: PRK10130 205922008507 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922008508 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922008509 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922008510 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 205922008511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008512 FAD dependent oxidoreductase; Region: DAO; pfam01266 205922008513 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 205922008514 mce related protein; Region: MCE; pfam02470 205922008515 mce related protein; Region: MCE; pfam02470 205922008516 mce related protein; Region: MCE; pfam02470 205922008517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 205922008518 Protein of unknown function (DUF330); Region: DUF330; cl01135 205922008519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922008520 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922008521 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 205922008522 dimer interface [polypeptide binding]; other site 205922008523 phosphorylation site [posttranslational modification] 205922008524 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922008525 ATP binding site [chemical binding]; other site 205922008526 Mg2+ binding site [ion binding]; other site 205922008527 G-X-G motif; other site 205922008528 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 205922008529 catalytic core [active] 205922008530 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 205922008531 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 205922008532 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 205922008533 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 205922008534 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 205922008535 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 205922008536 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 205922008537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922008538 dimer interface [polypeptide binding]; other site 205922008539 conserved gate region; other site 205922008540 ABC-ATPase subunit interface; other site 205922008541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922008542 dimer interface [polypeptide binding]; other site 205922008543 conserved gate region; other site 205922008544 putative PBP binding loops; other site 205922008545 ABC-ATPase subunit interface; other site 205922008546 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922008547 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 205922008548 Walker A/P-loop; other site 205922008549 ATP binding site [chemical binding]; other site 205922008550 Q-loop/lid; other site 205922008551 ABC transporter signature motif; other site 205922008552 Walker B; other site 205922008553 D-loop; other site 205922008554 H-loop/switch region; other site 205922008555 TOBE domain; Region: TOBE_2; cl01440 205922008556 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 205922008557 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 205922008558 active site 205922008559 DNA binding site [nucleotide binding] 205922008560 Int/Topo IB signature motif; other site 205922008561 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 205922008562 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 205922008563 inhibitor-cofactor binding pocket; inhibition site 205922008564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922008565 catalytic residue [active] 205922008566 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 205922008567 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 205922008568 Ligand binding site; other site 205922008569 Putative Catalytic site; other site 205922008570 DXD motif; other site 205922008571 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 205922008572 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 205922008573 active site 205922008574 substrate binding site [chemical binding]; other site 205922008575 cosubstrate binding site; other site 205922008576 catalytic site [active] 205922008577 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 205922008578 active site 205922008579 hexamer interface [polypeptide binding]; other site 205922008580 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 205922008581 NAD binding site [chemical binding]; other site 205922008582 substrate binding site [chemical binding]; other site 205922008583 active site 205922008584 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 205922008585 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 205922008586 putative active site [active] 205922008587 putative catalytic site [active] 205922008588 putative Zn binding site [ion binding]; other site 205922008589 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 205922008590 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 205922008591 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 205922008592 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 205922008593 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 205922008594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008595 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 205922008596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008597 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 205922008598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922008599 Coenzyme A binding pocket [chemical binding]; other site 205922008600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008601 Helix-turn-helix domains; Region: HTH; cl00088 205922008602 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 205922008603 dimerization interface [polypeptide binding]; other site 205922008604 argininosuccinate lyase; Provisional; Region: PRK00855 205922008605 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 205922008606 active sites [active] 205922008607 tetramer interface [polypeptide binding]; other site 205922008608 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922008609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922008610 dimer interface [polypeptide binding]; other site 205922008611 conserved gate region; other site 205922008612 putative PBP binding loops; other site 205922008613 ABC-ATPase subunit interface; other site 205922008614 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922008615 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922008616 Walker A/P-loop; other site 205922008617 ATP binding site [chemical binding]; other site 205922008618 Q-loop/lid; other site 205922008619 ABC transporter signature motif; other site 205922008620 Walker B; other site 205922008621 D-loop; other site 205922008622 H-loop/switch region; other site 205922008623 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 205922008624 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922008625 substrate binding pocket [chemical binding]; other site 205922008626 membrane-bound complex binding site; other site 205922008627 hinge residues; other site 205922008628 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 205922008629 active site 205922008630 catalytic site [active] 205922008631 Zn binding site [ion binding]; other site 205922008632 tetramer interface [polypeptide binding]; other site 205922008633 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 205922008634 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 205922008635 active site 205922008636 catalytic site [active] 205922008637 Zn binding site [ion binding]; other site 205922008638 tetramer interface [polypeptide binding]; other site 205922008639 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 205922008640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008641 putative substrate translocation pore; other site 205922008642 HPP family; Region: HPP; pfam04982 205922008643 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922008644 active site 205922008645 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 205922008646 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 205922008647 homotrimer interaction site [polypeptide binding]; other site 205922008648 putative active site [active] 205922008649 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922008650 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 205922008651 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 205922008652 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 205922008653 substrate binding site [chemical binding]; other site 205922008654 oxyanion hole (OAH) forming residues; other site 205922008655 trimer interface [polypeptide binding]; other site 205922008656 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 205922008657 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922008658 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922008659 active site 205922008660 enoyl-CoA hydratase; Provisional; Region: PRK05862 205922008661 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 205922008662 substrate binding site [chemical binding]; other site 205922008663 oxyanion hole (OAH) forming residues; other site 205922008664 trimer interface [polypeptide binding]; other site 205922008665 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922008666 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922008667 active site 205922008668 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 205922008669 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 205922008670 dimer interface [polypeptide binding]; other site 205922008671 active site 205922008672 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205922008673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008674 NAD(P) binding site [chemical binding]; other site 205922008675 active site 205922008676 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 205922008677 AMP-binding enzyme; Region: AMP-binding; cl15778 205922008678 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922008679 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922008680 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922008681 SurA N-terminal domain; Region: SurA_N_3; cl07813 205922008682 Iron permease FTR1 family; Region: FTR1; cl00475 205922008683 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922008684 Imelysin; Region: Peptidase_M75; cl09159 205922008685 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 205922008686 Imelysin; Region: Peptidase_M75; cl09159 205922008687 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 205922008688 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 205922008689 domain interface [polypeptide binding]; other site 205922008690 putative active site [active] 205922008691 catalytic site [active] 205922008692 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 205922008693 domain interface [polypeptide binding]; other site 205922008694 putative active site [active] 205922008695 catalytic site [active] 205922008696 putative transcriptional regulator; Provisional; Region: PRK11640 205922008697 Helix-turn-helix domains; Region: HTH; cl00088 205922008698 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 205922008699 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 205922008700 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 205922008701 active site 205922008702 dimer interface [polypeptide binding]; other site 205922008703 non-prolyl cis peptide bond; other site 205922008704 insertion regions; other site 205922008705 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 205922008706 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 205922008707 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 205922008708 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 205922008709 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 205922008710 putative NADH binding site [chemical binding]; other site 205922008711 putative active site [active] 205922008712 nudix motif; other site 205922008713 putative metal binding site [ion binding]; other site 205922008714 enoyl-CoA hydratase; Provisional; Region: PRK06142 205922008715 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 205922008716 substrate binding site [chemical binding]; other site 205922008717 oxyanion hole (OAH) forming residues; other site 205922008718 trimer interface [polypeptide binding]; other site 205922008719 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 205922008720 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 205922008721 S-adenosylmethionine binding site [chemical binding]; other site 205922008722 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 205922008723 TPR motif; other site 205922008724 Tetratricopeptide repeat; Region: TPR_16; pfam13432 205922008725 binding surface 205922008726 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 205922008727 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922008728 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 205922008729 DNA binding residues [nucleotide binding] 205922008730 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 205922008731 Isochorismatase family; Region: Isochorismatase; pfam00857 205922008732 catalytic triad [active] 205922008733 metal binding site [ion binding]; metal-binding site 205922008734 conserved cis-peptide bond; other site 205922008735 putative acetyltransferase YhhY; Provisional; Region: PRK10140 205922008736 sensor protein RstB; Provisional; Region: PRK10604 205922008737 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922008738 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 205922008739 dimer interface [polypeptide binding]; other site 205922008740 phosphorylation site [posttranslational modification] 205922008741 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922008742 ATP binding site [chemical binding]; other site 205922008743 Mg2+ binding site [ion binding]; other site 205922008744 G-X-G motif; other site 205922008745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922008746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922008747 active site 205922008748 phosphorylation site [posttranslational modification] 205922008749 intermolecular recognition site; other site 205922008750 dimerization interface [polypeptide binding]; other site 205922008751 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 205922008752 DNA binding site [nucleotide binding] 205922008753 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 205922008754 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922008755 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922008756 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 205922008757 Protein export membrane protein; Region: SecD_SecF; cl14618 205922008758 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 205922008759 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922008760 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 205922008761 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 205922008762 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922008763 Transcriptional regulators [Transcription]; Region: PurR; COG1609 205922008764 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205922008765 DNA binding site [nucleotide binding] 205922008766 domain linker motif; other site 205922008767 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 205922008768 putative dimerization interface [polypeptide binding]; other site 205922008769 putative ligand binding site [chemical binding]; other site 205922008770 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 205922008771 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205922008772 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 205922008773 substrate binding site [chemical binding]; other site 205922008774 ATP binding site [chemical binding]; other site 205922008775 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008776 D-galactonate transporter; Region: 2A0114; TIGR00893 205922008777 putative substrate translocation pore; other site 205922008778 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 205922008779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008780 aspartate aminotransferase; Provisional; Region: PRK05764 205922008781 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 205922008782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922008783 homodimer interface [polypeptide binding]; other site 205922008784 catalytic residue [active] 205922008785 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922008786 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 205922008787 dimerization interface [polypeptide binding]; other site 205922008788 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922008789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922008790 dimer interface [polypeptide binding]; other site 205922008791 putative CheW interface [polypeptide binding]; other site 205922008792 Glycerate kinase family; Region: Gly_kinase; cl00841 205922008793 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 205922008794 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 205922008795 Helix-turn-helix domains; Region: HTH; cl00088 205922008796 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 205922008797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008798 putative substrate translocation pore; other site 205922008799 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 205922008800 active site 205922008801 metal binding site [ion binding]; metal-binding site 205922008802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922008803 NAD(P) binding site [chemical binding]; other site 205922008804 active site 205922008805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008806 Helix-turn-helix domains; Region: HTH; cl00088 205922008807 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 205922008808 putative effector binding pocket; other site 205922008809 dimerization interface [polypeptide binding]; other site 205922008810 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 205922008811 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 205922008812 active site 205922008813 catalytic tetrad [active] 205922008814 Predicted permeases [General function prediction only]; Region: RarD; COG2962 205922008815 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 205922008816 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 205922008817 dimer interface [polypeptide binding]; other site 205922008818 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 205922008819 active site 205922008820 Fe binding site [ion binding]; other site 205922008821 EamA-like transporter family; Region: EamA; cl01037 205922008822 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 205922008823 EamA-like transporter family; Region: EamA; cl01037 205922008824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922008825 Helix-turn-helix domains; Region: HTH; cl00088 205922008826 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 205922008827 dimerization interface [polypeptide binding]; other site 205922008828 phage resistance protein; Provisional; Region: PRK10551 205922008829 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 205922008830 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 205922008831 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 205922008832 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205922008833 dimer interface [polypeptide binding]; other site 205922008834 active site 205922008835 metal binding site [ion binding]; metal-binding site 205922008836 glutathione binding site [chemical binding]; other site 205922008837 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 205922008838 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 205922008839 catalytic residue [active] 205922008840 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 205922008841 catalytic residues [active] 205922008842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922008843 peroxiredoxin; Region: AhpC; TIGR03137 205922008844 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 205922008845 dimer interface [polypeptide binding]; other site 205922008846 decamer (pentamer of dimers) interface [polypeptide binding]; other site 205922008847 catalytic triad [active] 205922008848 peroxidatic and resolving cysteines [active] 205922008849 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 205922008850 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 205922008851 DNA binding site [nucleotide binding] 205922008852 dimer interface [polypeptide binding]; other site 205922008853 active site 205922008854 Int/Topo IB signature motif; other site 205922008855 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 205922008856 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 205922008857 glutathione reductase; Validated; Region: PRK06116 205922008858 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922008859 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205922008860 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 205922008861 active site 205922008862 tetramer interface; other site 205922008863 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 205922008864 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922008865 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922008866 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 205922008867 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 205922008868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922008869 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 205922008870 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 205922008871 DNA binding site [nucleotide binding] 205922008872 active site 205922008873 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 205922008874 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 205922008875 NADP binding site [chemical binding]; other site 205922008876 dimer interface [polypeptide binding]; other site 205922008877 Nitronate monooxygenase; Region: NMO; pfam03060 205922008878 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 205922008879 FMN binding site [chemical binding]; other site 205922008880 substrate binding site [chemical binding]; other site 205922008881 putative catalytic residue [active] 205922008882 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 205922008883 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 205922008884 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922008885 dimer interface [polypeptide binding]; other site 205922008886 conserved gate region; other site 205922008887 putative PBP binding loops; other site 205922008888 ABC-ATPase subunit interface; other site 205922008889 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922008890 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 205922008891 Walker A/P-loop; other site 205922008892 ATP binding site [chemical binding]; other site 205922008893 Q-loop/lid; other site 205922008894 ABC transporter signature motif; other site 205922008895 Walker B; other site 205922008896 D-loop; other site 205922008897 H-loop/switch region; other site 205922008898 TOBE domain; Region: TOBE_2; cl01440 205922008899 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 205922008900 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 205922008901 active site 205922008902 DNA binding site [nucleotide binding] 205922008903 Int/Topo IB signature motif; other site 205922008904 catalytic residues [active] 205922008905 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 205922008906 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922008907 Walker A/P-loop; other site 205922008908 ATP binding site [chemical binding]; other site 205922008909 Q-loop/lid; other site 205922008910 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922008911 ABC transporter signature motif; other site 205922008912 Walker B; other site 205922008913 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922008914 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922008915 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 205922008916 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922008917 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922008918 Helix-turn-helix domains; Region: HTH; cl00088 205922008919 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 205922008920 active site 205922008921 CcmE; Region: CcmE; cl00994 205922008922 Heme exporter protein D (CcmD); Region: CcmD; cl11475 205922008923 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 205922008924 Benzoate membrane transport protein; Region: BenE; pfam03594 205922008925 benzoate transporter; Region: benE; TIGR00843 205922008926 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 205922008927 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 205922008928 dimer interface [polypeptide binding]; other site 205922008929 active site 205922008930 Muconolactone delta-isomerase; Region: MIase; cl01992 205922008931 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 205922008932 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 205922008933 octamer interface [polypeptide binding]; other site 205922008934 active site 205922008935 benzoate transport; Region: 2A0115; TIGR00895 205922008936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008937 putative substrate translocation pore; other site 205922008938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922008939 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 205922008940 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922008941 putative NAD(P) binding site [chemical binding]; other site 205922008942 active site 205922008943 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 205922008944 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 205922008945 catalytic loop [active] 205922008946 iron binding site [ion binding]; other site 205922008947 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 205922008948 FAD binding pocket [chemical binding]; other site 205922008949 FAD binding motif [chemical binding]; other site 205922008950 phosphate binding motif [ion binding]; other site 205922008951 beta-alpha-beta structure motif; other site 205922008952 NAD binding pocket [chemical binding]; other site 205922008953 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 205922008954 inter-subunit interface; other site 205922008955 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 205922008956 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 205922008957 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 205922008958 putative alpha subunit interface [polypeptide binding]; other site 205922008959 putative active site [active] 205922008960 putative substrate binding site [chemical binding]; other site 205922008961 Fe binding site [ion binding]; other site 205922008962 Cupin domain; Region: Cupin_2; cl09118 205922008963 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922008964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922008965 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 205922008966 dimerization interface [polypeptide binding]; other site 205922008967 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922008968 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922008969 dimer interface [polypeptide binding]; other site 205922008970 putative CheW interface [polypeptide binding]; other site 205922008971 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 205922008972 active site 205922008973 catalytic residues [active] 205922008974 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 205922008975 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 205922008976 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 205922008977 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 205922008978 FeS/SAM binding site; other site 205922008979 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 205922008980 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 205922008981 Cytochrome c; Region: Cytochrom_C; cl11414 205922008982 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 205922008983 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 205922008984 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 205922008985 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 205922008986 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 205922008987 Walker A motif; other site 205922008988 ATP binding site [chemical binding]; other site 205922008989 Walker B motif; other site 205922008990 arginine finger; other site 205922008991 Helix-turn-helix domains; Region: HTH; cl00088 205922008992 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922008993 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 205922008994 NAD(P) binding site [chemical binding]; other site 205922008995 catalytic residues [active] 205922008996 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 205922008997 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 205922008998 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 205922008999 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922009000 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009001 Walker A/P-loop; other site 205922009002 ATP binding site [chemical binding]; other site 205922009003 Q-loop/lid; other site 205922009004 ABC transporter signature motif; other site 205922009005 Walker B; other site 205922009006 D-loop; other site 205922009007 H-loop/switch region; other site 205922009008 Cytochrome c; Region: Cytochrom_C; cl11414 205922009009 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922009010 Helix-turn-helix domains; Region: HTH; cl00088 205922009011 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922009012 Bacterial transcriptional regulator; Region: IclR; pfam01614 205922009013 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922009014 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922009015 putative substrate translocation pore; other site 205922009016 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 205922009017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922009018 hypothetical protein; Validated; Region: PRK06201 205922009019 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 205922009020 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922009021 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922009022 conserved cys residue [active] 205922009023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922009024 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 205922009025 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205922009026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009027 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 205922009028 ParB-like nuclease domain; Region: ParBc; cl02129 205922009029 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 205922009030 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 205922009031 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 205922009032 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 205922009033 dimer interface [polypeptide binding]; other site 205922009034 ssDNA binding site [nucleotide binding]; other site 205922009035 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205922009036 DNA topoisomerase III; Provisional; Region: PRK07726 205922009037 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 205922009038 active site 205922009039 putative interdomain interaction site [polypeptide binding]; other site 205922009040 putative metal-binding site [ion binding]; other site 205922009041 putative nucleotide binding site [chemical binding]; other site 205922009042 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 205922009043 domain I; other site 205922009044 DNA binding groove [nucleotide binding] 205922009045 phosphate binding site [ion binding]; other site 205922009046 domain II; other site 205922009047 domain III; other site 205922009048 nucleotide binding site [chemical binding]; other site 205922009049 catalytic site [active] 205922009050 domain IV; other site 205922009051 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205922009052 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 205922009053 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 205922009054 MPN+ (JAMM) motif; other site 205922009055 Zinc-binding site [ion binding]; other site 205922009056 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 205922009057 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 205922009058 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 205922009059 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 205922009060 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 205922009061 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 205922009062 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 205922009063 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 205922009064 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 205922009065 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 205922009066 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 205922009067 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 205922009068 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 205922009069 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 205922009070 Protein of unknown function (DUF904); Region: DUF904; cl11531 205922009071 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 205922009072 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 205922009073 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 205922009074 non-specific DNA binding site [nucleotide binding]; other site 205922009075 salt bridge; other site 205922009076 sequence-specific DNA binding site [nucleotide binding]; other site 205922009077 TraU protein; Region: TraU; cl06067 205922009078 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 205922009079 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 205922009080 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 205922009081 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 205922009082 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 205922009083 Putative helicase; Region: TraI_2; pfam07514 205922009084 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 205922009085 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 205922009086 Low affinity iron permease; Region: Iron_permease; cl12096 205922009087 Fimbrial protein; Region: Fimbrial; cl01416 205922009088 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 205922009089 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 205922009090 dimer interface [polypeptide binding]; other site 205922009091 phosphorylation site [posttranslational modification] 205922009092 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009093 ATP binding site [chemical binding]; other site 205922009094 Mg2+ binding site [ion binding]; other site 205922009095 G-X-G motif; other site 205922009096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009097 active site 205922009098 phosphorylation site [posttranslational modification] 205922009099 intermolecular recognition site; other site 205922009100 dimerization interface [polypeptide binding]; other site 205922009101 Response regulator receiver domain; Region: Response_reg; pfam00072 205922009102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009103 active site 205922009104 phosphorylation site [posttranslational modification] 205922009105 intermolecular recognition site; other site 205922009106 dimerization interface [polypeptide binding]; other site 205922009107 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 205922009108 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 205922009109 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 205922009110 dimer interface [polypeptide binding]; other site 205922009111 phosphorylation site [posttranslational modification] 205922009112 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009113 ATP binding site [chemical binding]; other site 205922009114 Mg2+ binding site [ion binding]; other site 205922009115 G-X-G motif; other site 205922009116 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009117 active site 205922009118 phosphorylation site [posttranslational modification] 205922009119 intermolecular recognition site; other site 205922009120 dimerization interface [polypeptide binding]; other site 205922009121 transcriptional regulator RcsB; Provisional; Region: PRK10840 205922009122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009123 active site 205922009124 phosphorylation site [posttranslational modification] 205922009125 intermolecular recognition site; other site 205922009126 dimerization interface [polypeptide binding]; other site 205922009127 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 205922009128 DNA binding residues [nucleotide binding] 205922009129 dimerization interface [polypeptide binding]; other site 205922009130 Fimbrial protein; Region: Fimbrial; cl01416 205922009131 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 205922009132 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 205922009133 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 205922009134 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 205922009135 PapC N-terminal domain; Region: PapC_N; pfam13954 205922009136 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 205922009137 PapC C-terminal domain; Region: PapC_C; pfam13953 205922009138 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 205922009139 Nucleoid-associated protein [General function prediction only]; Region: COG3081 205922009140 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 205922009141 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922009142 short chain dehydrogenase; Validated; Region: PRK05855 205922009143 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922009144 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 205922009145 Helix-turn-helix domains; Region: HTH; cl00088 205922009146 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 205922009147 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 205922009148 Helix-turn-helix domains; Region: HTH; cl00088 205922009149 Helix-turn-helix domains; Region: HTH; cl00088 205922009150 Integrase core domain; Region: rve; cl01316 205922009151 Transposase domain (DUF772); Region: DUF772; pfam05598 205922009152 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 205922009153 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 205922009154 integrase; Provisional; Region: PRK09692 205922009155 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 205922009156 active site 205922009157 Int/Topo IB signature motif; other site 205922009158 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 205922009159 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 205922009160 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 205922009161 GIY-YIG motif/motif A; other site 205922009162 active site 205922009163 catalytic site [active] 205922009164 putative DNA binding site [nucleotide binding]; other site 205922009165 metal binding site [ion binding]; metal-binding site 205922009166 UvrB/uvrC motif; Region: UVR; pfam02151 205922009167 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 205922009168 response regulator; Provisional; Region: PRK09483 205922009169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009170 active site 205922009171 phosphorylation site [posttranslational modification] 205922009172 intermolecular recognition site; other site 205922009173 dimerization interface [polypeptide binding]; other site 205922009174 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 205922009175 DNA binding residues [nucleotide binding] 205922009176 dimerization interface [polypeptide binding]; other site 205922009177 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922009178 Coenzyme A binding pocket [chemical binding]; other site 205922009179 NeuB family; Region: NeuB; cl00496 205922009180 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 205922009181 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 205922009182 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922009183 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 205922009184 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 205922009185 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 205922009186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009187 dimer interface [polypeptide binding]; other site 205922009188 conserved gate region; other site 205922009189 putative PBP binding loops; other site 205922009190 ABC-ATPase subunit interface; other site 205922009191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009192 dimer interface [polypeptide binding]; other site 205922009193 conserved gate region; other site 205922009194 putative PBP binding loops; other site 205922009195 ABC-ATPase subunit interface; other site 205922009196 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 205922009197 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922009198 Walker A/P-loop; other site 205922009199 ATP binding site [chemical binding]; other site 205922009200 Q-loop/lid; other site 205922009201 ABC transporter signature motif; other site 205922009202 Walker B; other site 205922009203 D-loop; other site 205922009204 H-loop/switch region; other site 205922009205 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922009206 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922009207 Walker A/P-loop; other site 205922009208 ATP binding site [chemical binding]; other site 205922009209 Q-loop/lid; other site 205922009210 ABC transporter signature motif; other site 205922009211 Walker B; other site 205922009212 D-loop; other site 205922009213 H-loop/switch region; other site 205922009214 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922009215 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 205922009216 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 205922009217 Walker A motif; other site 205922009218 ATP binding site [chemical binding]; other site 205922009219 Walker B motif; other site 205922009220 arginine finger; other site 205922009221 Helix-turn-helix domains; Region: HTH; cl00088 205922009222 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 205922009223 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 205922009224 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 205922009225 NAD binding site [chemical binding]; other site 205922009226 homotetramer interface [polypeptide binding]; other site 205922009227 homodimer interface [polypeptide binding]; other site 205922009228 substrate binding site [chemical binding]; other site 205922009229 active site 205922009230 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 205922009231 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 205922009232 AMP-binding enzyme; Region: AMP-binding; cl15778 205922009233 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922009234 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 205922009235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009236 Walker A motif; other site 205922009237 ATP binding site [chemical binding]; other site 205922009238 Walker B motif; other site 205922009239 PAS fold; Region: PAS_4; pfam08448 205922009240 putative diguanylate cyclase; Provisional; Region: PRK09776 205922009241 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 205922009242 PAS fold; Region: PAS_4; pfam08448 205922009243 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 205922009244 putative active site [active] 205922009245 heme pocket [chemical binding]; other site 205922009246 Domain of unknown function (DUF4078); Region: DUF4078; pfam13300 205922009247 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 205922009248 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 205922009249 dimer interface [polypeptide binding]; other site 205922009250 phosphorylation site [posttranslational modification] 205922009251 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009252 ATP binding site [chemical binding]; other site 205922009253 Mg2+ binding site [ion binding]; other site 205922009254 G-X-G motif; other site 205922009255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009256 Response regulator receiver domain; Region: Response_reg; pfam00072 205922009257 active site 205922009258 phosphorylation site [posttranslational modification] 205922009259 intermolecular recognition site; other site 205922009260 dimerization interface [polypeptide binding]; other site 205922009261 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922009262 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205922009263 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 205922009264 substrate binding site [chemical binding]; other site 205922009265 ATP binding site [chemical binding]; other site 205922009266 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 205922009267 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 205922009268 dimer interface [polypeptide binding]; other site 205922009269 active site 205922009270 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922009271 substrate binding site [chemical binding]; other site 205922009272 catalytic residue [active] 205922009273 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922009274 Helix-turn-helix domains; Region: HTH; cl00088 205922009275 Bacterial transcriptional regulator; Region: IclR; pfam01614 205922009276 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 205922009277 homotrimer interaction site [polypeptide binding]; other site 205922009278 putative active site [active] 205922009279 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922009280 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922009281 Walker A/P-loop; other site 205922009282 ATP binding site [chemical binding]; other site 205922009283 Q-loop/lid; other site 205922009284 ABC transporter signature motif; other site 205922009285 Walker B; other site 205922009286 D-loop; other site 205922009287 H-loop/switch region; other site 205922009288 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922009289 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009290 dimer interface [polypeptide binding]; other site 205922009291 conserved gate region; other site 205922009292 putative PBP binding loops; other site 205922009293 ABC-ATPase subunit interface; other site 205922009294 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009295 dimer interface [polypeptide binding]; other site 205922009296 conserved gate region; other site 205922009297 putative PBP binding loops; other site 205922009298 ABC-ATPase subunit interface; other site 205922009299 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922009300 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 205922009301 substrate binding pocket [chemical binding]; other site 205922009302 membrane-bound complex binding site; other site 205922009303 hinge residues; other site 205922009304 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 205922009305 catalytic residues [active] 205922009306 Integral membrane protein TerC family; Region: TerC; cl10468 205922009307 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 205922009308 Transporter associated domain; Region: CorC_HlyC; cl08393 205922009309 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 205922009310 PLD-like domain; Region: PLDc_2; pfam13091 205922009311 putative active site [active] 205922009312 catalytic site [active] 205922009313 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 205922009314 PLD-like domain; Region: PLDc_2; pfam13091 205922009315 putative active site [active] 205922009316 catalytic site [active] 205922009317 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922009318 metal ion-dependent adhesion site (MIDAS); other site 205922009319 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 205922009320 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 205922009321 Walker A motif; other site 205922009322 ATP binding site [chemical binding]; other site 205922009323 Walker B motif; other site 205922009324 arginine finger; other site 205922009325 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 205922009326 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 205922009327 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 205922009328 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 205922009329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009330 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 205922009331 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 205922009332 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 205922009333 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 205922009334 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922009335 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 205922009336 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 205922009337 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 205922009338 NifU-like domain; Region: NifU; cl00484 205922009339 OpgC protein; Region: OpgC_C; cl00792 205922009340 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922009341 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 205922009342 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 205922009343 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 205922009344 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 205922009345 substrate binding pocket [chemical binding]; other site 205922009346 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 205922009347 B12 binding site [chemical binding]; other site 205922009348 cobalt ligand [ion binding]; other site 205922009349 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 205922009350 Leucine rich repeat; Region: LRR_8; pfam13855 205922009351 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 205922009352 Leucine-rich repeats; other site 205922009353 Leucine rich repeat; Region: LRR_8; pfam13855 205922009354 Substrate binding site [chemical binding]; other site 205922009355 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 205922009356 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 205922009357 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 205922009358 putative ligand binding site [chemical binding]; other site 205922009359 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 205922009360 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922009361 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 205922009362 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 205922009363 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 205922009364 putative inner membrane peptidase; Provisional; Region: PRK11778 205922009365 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 205922009366 tandem repeat interface [polypeptide binding]; other site 205922009367 oligomer interface [polypeptide binding]; other site 205922009368 active site residues [active] 205922009369 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 205922009370 catalytic core [active] 205922009371 SCP-2 sterol transfer family; Region: SCP2; cl01225 205922009372 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 205922009373 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922009374 Walker A/P-loop; other site 205922009375 ATP binding site [chemical binding]; other site 205922009376 Q-loop/lid; other site 205922009377 ABC transporter signature motif; other site 205922009378 Walker B; other site 205922009379 D-loop; other site 205922009380 H-loop/switch region; other site 205922009381 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922009382 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922009383 Walker A/P-loop; other site 205922009384 ATP binding site [chemical binding]; other site 205922009385 Q-loop/lid; other site 205922009386 ABC transporter signature motif; other site 205922009387 Walker B; other site 205922009388 D-loop; other site 205922009389 H-loop/switch region; other site 205922009390 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922009391 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 205922009392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009393 dimer interface [polypeptide binding]; other site 205922009394 conserved gate region; other site 205922009395 putative PBP binding loops; other site 205922009396 ABC-ATPase subunit interface; other site 205922009397 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 205922009398 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009399 dimer interface [polypeptide binding]; other site 205922009400 conserved gate region; other site 205922009401 putative PBP binding loops; other site 205922009402 ABC-ATPase subunit interface; other site 205922009403 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 205922009404 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 205922009405 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 205922009406 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 205922009407 N-terminal plug; other site 205922009408 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 205922009409 ligand-binding site [chemical binding]; other site 205922009410 RES domain; Region: RES; cl02411 205922009411 Uncharacterized conserved protein [Function unknown]; Region: COG5642 205922009412 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 205922009413 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922009414 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 205922009415 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 205922009416 N-terminal plug; other site 205922009417 ligand-binding site [chemical binding]; other site 205922009418 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922009419 FecR protein; Region: FecR; pfam04773 205922009420 RNA polymerase sigma factor; Provisional; Region: PRK12525 205922009421 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922009422 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 205922009423 DNA binding residues [nucleotide binding] 205922009424 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 205922009425 putative active site [active] 205922009426 putative substrate binding site [chemical binding]; other site 205922009427 putative cosubstrate binding site; other site 205922009428 catalytic site [active] 205922009429 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 205922009430 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 205922009431 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 205922009432 substrate binding site [chemical binding]; other site 205922009433 oxyanion hole (OAH) forming residues; other site 205922009434 trimer interface [polypeptide binding]; other site 205922009435 transcriptional regulator HdfR; Provisional; Region: PRK03601 205922009436 Helix-turn-helix domains; Region: HTH; cl00088 205922009437 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 205922009438 dimerization interface [polypeptide binding]; other site 205922009439 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 205922009440 hydrophobic ligand binding site; other site 205922009441 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 205922009442 Strictosidine synthase; Region: Str_synth; pfam03088 205922009443 Protein of unknown function (DUF465); Region: DUF465; cl01070 205922009444 Domain of unknown function (DUF305); Region: DUF305; cl15795 205922009445 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 205922009446 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 205922009447 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 205922009448 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 205922009449 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009450 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 205922009451 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 205922009452 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 205922009453 dimer interface [polypeptide binding]; other site 205922009454 phosphorylation site [posttranslational modification] 205922009455 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009456 ATP binding site [chemical binding]; other site 205922009457 Mg2+ binding site [ion binding]; other site 205922009458 G-X-G motif; other site 205922009459 Response regulator receiver domain; Region: Response_reg; pfam00072 205922009460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009461 active site 205922009462 phosphorylation site [posttranslational modification] 205922009463 intermolecular recognition site; other site 205922009464 dimerization interface [polypeptide binding]; other site 205922009465 sensory histidine kinase AtoS; Provisional; Region: PRK11360 205922009466 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922009467 dimer interface [polypeptide binding]; other site 205922009468 phosphorylation site [posttranslational modification] 205922009469 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009470 ATP binding site [chemical binding]; other site 205922009471 Mg2+ binding site [ion binding]; other site 205922009472 G-X-G motif; other site 205922009473 Response regulator receiver domain; Region: Response_reg; pfam00072 205922009474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009475 active site 205922009476 phosphorylation site [posttranslational modification] 205922009477 intermolecular recognition site; other site 205922009478 dimerization interface [polypeptide binding]; other site 205922009479 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 205922009480 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 205922009481 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 205922009482 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 205922009483 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 205922009484 PAS fold; Region: PAS_3; pfam08447 205922009485 putative active site [active] 205922009486 heme pocket [chemical binding]; other site 205922009487 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 205922009488 dimer interface [polypeptide binding]; other site 205922009489 phosphorylation site [posttranslational modification] 205922009490 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009491 ATP binding site [chemical binding]; other site 205922009492 Mg2+ binding site [ion binding]; other site 205922009493 G-X-G motif; other site 205922009494 Response regulator receiver domain; Region: Response_reg; pfam00072 205922009495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009496 active site 205922009497 phosphorylation site [posttranslational modification] 205922009498 intermolecular recognition site; other site 205922009499 dimerization interface [polypeptide binding]; other site 205922009500 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922009501 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922009502 DNA-binding site [nucleotide binding]; DNA binding site 205922009503 FCD domain; Region: FCD; cl11656 205922009504 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 205922009505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009506 Walker A/P-loop; other site 205922009507 ATP binding site [chemical binding]; other site 205922009508 Q-loop/lid; other site 205922009509 ABC transporter signature motif; other site 205922009510 Walker B; other site 205922009511 D-loop; other site 205922009512 H-loop/switch region; other site 205922009513 TOBE domain; Region: TOBE_2; cl01440 205922009514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009515 dimer interface [polypeptide binding]; other site 205922009516 conserved gate region; other site 205922009517 putative PBP binding loops; other site 205922009518 ABC-ATPase subunit interface; other site 205922009519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009520 dimer interface [polypeptide binding]; other site 205922009521 conserved gate region; other site 205922009522 putative PBP binding loops; other site 205922009523 ABC-ATPase subunit interface; other site 205922009524 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 205922009525 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 205922009526 cytosine deaminase; Provisional; Region: PRK05985 205922009527 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 205922009528 active site 205922009529 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 205922009530 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 205922009531 active site 205922009532 Flavin Reductases; Region: FlaRed; cl00801 205922009533 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 205922009534 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 205922009535 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 205922009536 generic binding surface I; other site 205922009537 generic binding surface II; other site 205922009538 DNA Polymerase Y-family; Region: PolY_like; cd03468 205922009539 active site 205922009540 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 205922009541 DNA binding site [nucleotide binding] 205922009542 DNA recombination protein RecA; Reviewed; Region: recA; PRK09519 205922009543 Cell division inhibitor SulA; Region: SulA; cl01880 205922009544 LexA repressor; Provisional; Region: PRK12423 205922009545 Helix-turn-helix domains; Region: HTH; cl00088 205922009546 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 205922009547 Catalytic site [active] 205922009548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922009549 Helix-turn-helix domains; Region: HTH; cl00088 205922009550 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 205922009551 putative effector binding pocket; other site 205922009552 dimerization interface [polypeptide binding]; other site 205922009553 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 205922009554 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 205922009555 active site 205922009556 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 205922009557 putative metal dependent hydrolase; Provisional; Region: PRK11598 205922009558 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 205922009559 Sulfatase; Region: Sulfatase; cl10460 205922009560 Protein of unknown function (DUF971); Region: DUF971; cl01414 205922009561 Phosphoinositide 3-kinase family, accessory domain (PIK domain); PIK domain is conserved in PI3 and PI4-kinases. Its role is unclear, but it has been suggested to be involved in substrate presentation. Phosphoinositide 3-kinases play an important role in...; Region: PI3Ka; cl00271 205922009562 HEAT repeats; Region: HEAT_2; pfam13646 205922009563 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 205922009564 HEAT repeats; Region: HEAT_2; pfam13646 205922009565 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 205922009566 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922009567 Walker A/P-loop; other site 205922009568 ATP binding site [chemical binding]; other site 205922009569 Q-loop/lid; other site 205922009570 ABC transporter signature motif; other site 205922009571 Walker B; other site 205922009572 D-loop; other site 205922009573 H-loop/switch region; other site 205922009574 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922009575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009576 dimer interface [polypeptide binding]; other site 205922009577 conserved gate region; other site 205922009578 putative PBP binding loops; other site 205922009579 ABC-ATPase subunit interface; other site 205922009580 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 205922009581 NMT1-like family; Region: NMT1_2; cl15260 205922009582 Ferredoxin [Energy production and conversion]; Region: COG1146 205922009583 putative oxidoreductase; Provisional; Region: PRK08275 205922009584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922009585 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 205922009586 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 205922009587 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922009588 DNA-binding site [nucleotide binding]; DNA binding site 205922009589 UTRA domain; Region: UTRA; cl01230 205922009590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922009591 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 205922009592 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 205922009593 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922009594 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922009595 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922009596 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 205922009597 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 205922009598 haemagglutination activity domain; Region: Haemagg_act; cl05436 205922009599 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 205922009600 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 205922009601 type II secretion system protein F; Region: GspF; TIGR02120 205922009602 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922009603 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922009604 type II secretion system protein E; Region: type_II_gspE; TIGR02533 205922009605 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 205922009606 Walker A motif; other site 205922009607 ATP binding site [chemical binding]; other site 205922009608 Walker B motif; other site 205922009609 type II secretion system protein D; Region: type_II_gspD; TIGR02517 205922009610 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205922009611 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205922009612 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205922009613 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 205922009614 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 205922009615 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 205922009616 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 205922009617 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 205922009618 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 205922009619 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 205922009620 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 205922009621 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 205922009622 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922009623 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922009624 Coenzyme A binding pocket [chemical binding]; other site 205922009625 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 205922009626 amidase catalytic site [active] 205922009627 Zn binding residues [ion binding]; other site 205922009628 substrate binding site [chemical binding]; other site 205922009629 PAAR motif; Region: PAAR_motif; cl15808 205922009630 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205922009631 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 205922009632 P-loop; other site 205922009633 Magnesium ion binding site [ion binding]; other site 205922009634 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 205922009635 Magnesium ion binding site [ion binding]; other site 205922009636 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 205922009637 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 205922009638 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 205922009639 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 205922009640 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 205922009641 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 205922009642 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922009643 FecR protein; Region: FecR; pfam04773 205922009644 RNA polymerase sigma factor; Reviewed; Region: PRK12527 205922009645 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922009646 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922009647 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922009648 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 205922009649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922009650 DNA-binding site [nucleotide binding]; DNA binding site 205922009651 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 205922009652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922009653 homodimer interface [polypeptide binding]; other site 205922009654 catalytic residue [active] 205922009655 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922009656 Cupin domain; Region: Cupin_2; cl09118 205922009657 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 205922009658 MoxR-like ATPases [General function prediction only]; Region: COG0714 205922009659 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 205922009660 Walker A motif; other site 205922009661 ATP binding site [chemical binding]; other site 205922009662 Walker B motif; other site 205922009663 arginine finger; other site 205922009664 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 205922009665 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922009666 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 205922009667 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 205922009668 metal ion-dependent adhesion site (MIDAS); other site 205922009669 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922009670 metal ion-dependent adhesion site (MIDAS); other site 205922009671 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 205922009672 Tetratricopeptide repeat; Region: TPR_16; pfam13432 205922009673 TPR motif; other site 205922009674 binding surface 205922009675 Oxygen tolerance; Region: BatD; pfam13584 205922009676 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 205922009677 exonuclease subunit SbcD; Provisional; Region: PRK10966 205922009678 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 205922009679 active site 205922009680 metal binding site [ion binding]; metal-binding site 205922009681 DNA binding site [nucleotide binding] 205922009682 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 205922009683 exonuclease subunit SbcC; Provisional; Region: PRK10246 205922009684 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009685 Walker A/P-loop; other site 205922009686 ATP binding site [chemical binding]; other site 205922009687 Q-loop/lid; other site 205922009688 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 205922009689 exonuclease subunit SbcC; Provisional; Region: PRK10246 205922009690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009691 ABC transporter signature motif; other site 205922009692 Walker B; other site 205922009693 D-loop; other site 205922009694 H-loop/switch region; other site 205922009695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922009696 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922009697 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 205922009698 putative N-terminal domain interface [polypeptide binding]; other site 205922009699 putative dimer interface [polypeptide binding]; other site 205922009700 putative substrate binding pocket (H-site) [chemical binding]; other site 205922009701 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 205922009702 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 205922009703 dimer interface [polypeptide binding]; other site 205922009704 NADP binding site [chemical binding]; other site 205922009705 catalytic residues [active] 205922009706 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 205922009707 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 205922009708 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922009709 putative substrate translocation pore; other site 205922009710 Dehydratase family; Region: ILVD_EDD; cl00340 205922009711 Transcriptional regulators [Transcription]; Region: FadR; COG2186 205922009712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922009713 DNA-binding site [nucleotide binding]; DNA binding site 205922009714 FCD domain; Region: FCD; cl11656 205922009715 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 205922009716 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 205922009717 Amino acid synthesis; Region: AA_synth; pfam06684 205922009718 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 205922009719 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922009720 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922009721 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 205922009722 NAD(P) binding site [chemical binding]; other site 205922009723 catalytic residues [active] 205922009724 Flavin Reductases; Region: FlaRed; cl00801 205922009725 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922009726 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922009727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922009728 DNA-binding site [nucleotide binding]; DNA binding site 205922009729 FCD domain; Region: FCD; cl11656 205922009730 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 205922009731 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 205922009732 nudix motif; other site 205922009733 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 205922009734 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 205922009735 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 205922009736 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 205922009737 dimerization interface [polypeptide binding]; other site 205922009738 active site 205922009739 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 205922009740 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 205922009741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009742 dimer interface [polypeptide binding]; other site 205922009743 conserved gate region; other site 205922009744 putative PBP binding loops; other site 205922009745 ABC-ATPase subunit interface; other site 205922009746 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009747 dimer interface [polypeptide binding]; other site 205922009748 conserved gate region; other site 205922009749 putative PBP binding loops; other site 205922009750 ABC-ATPase subunit interface; other site 205922009751 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922009752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922009753 Walker A/P-loop; other site 205922009754 ATP binding site [chemical binding]; other site 205922009755 Q-loop/lid; other site 205922009756 ABC transporter signature motif; other site 205922009757 Walker B; other site 205922009758 D-loop; other site 205922009759 H-loop/switch region; other site 205922009760 TOBE domain; Region: TOBE_2; cl01440 205922009761 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 205922009762 active site 205922009763 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 205922009764 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 205922009765 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 205922009766 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 205922009767 dimer interface [polypeptide binding]; other site 205922009768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922009769 catalytic residue [active] 205922009770 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 205922009771 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 205922009772 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 205922009773 homodimer interface [polypeptide binding]; other site 205922009774 substrate-cofactor binding pocket; other site 205922009775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922009776 catalytic residue [active] 205922009777 YecR-like lipoprotein; Region: YecR; cl10256 205922009778 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922009779 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922009780 ATP binding site [chemical binding]; other site 205922009781 Mg2+ binding site [ion binding]; other site 205922009782 G-X-G motif; other site 205922009783 Response regulator receiver domain; Region: Response_reg; pfam00072 205922009784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009785 active site 205922009786 phosphorylation site [posttranslational modification] 205922009787 intermolecular recognition site; other site 205922009788 dimerization interface [polypeptide binding]; other site 205922009789 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922009790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009791 active site 205922009792 phosphorylation site [posttranslational modification] 205922009793 intermolecular recognition site; other site 205922009794 dimerization interface [polypeptide binding]; other site 205922009795 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 205922009796 DNA binding residues [nucleotide binding] 205922009797 dimerization interface [polypeptide binding]; other site 205922009798 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 205922009799 Membrane transport protein; Region: Mem_trans; cl09117 205922009800 Cupin domain; Region: Cupin_2; cl09118 205922009801 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922009802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922009803 amidase; Validated; Region: PRK06565 205922009804 Amidase; Region: Amidase; cl11426 205922009805 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 205922009806 Integral membrane protein TerC family; Region: TerC; cl10468 205922009807 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922009808 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 205922009809 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922009810 Na binding site [ion binding]; other site 205922009811 Flavin Reductases; Region: FlaRed; cl00801 205922009812 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 205922009813 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 205922009814 Helix-turn-helix domains; Region: HTH; cl00088 205922009815 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922009816 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922009817 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922009818 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 205922009819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922009820 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 205922009821 homotrimer interaction site [polypeptide binding]; other site 205922009822 putative active site [active] 205922009823 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 205922009824 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 205922009825 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 205922009826 metal binding site [ion binding]; metal-binding site 205922009827 putative dimer interface [polypeptide binding]; other site 205922009828 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922009829 Na binding site [ion binding]; other site 205922009830 Helix-turn-helix domains; Region: HTH; cl00088 205922009831 Isochorismatase family; Region: Isochorismatase; pfam00857 205922009832 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 205922009833 catalytic triad [active] 205922009834 conserved cis-peptide bond; other site 205922009835 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 205922009836 dimer interface [polypeptide binding]; other site 205922009837 NADP binding site [chemical binding]; other site 205922009838 catalytic residues [active] 205922009839 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 205922009840 active site 205922009841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922009842 Helix-turn-helix domains; Region: HTH; cl00088 205922009843 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 205922009844 putative dimerization interface [polypeptide binding]; other site 205922009845 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922009846 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 205922009847 NAD(P) binding site [chemical binding]; other site 205922009848 catalytic residues [active] 205922009849 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922009850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922009851 short chain dehydrogenase; Provisional; Region: PRK06180 205922009852 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 205922009853 NADP binding site [chemical binding]; other site 205922009854 active site 205922009855 steroid binding site; other site 205922009856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922009857 Helix-turn-helix domains; Region: HTH; cl00088 205922009858 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 205922009859 putative effector binding pocket; other site 205922009860 putative dimerization interface [polypeptide binding]; other site 205922009861 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 205922009862 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 205922009863 FAD binding domain; Region: FAD_binding_4; pfam01565 205922009864 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 205922009865 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922009866 Helix-turn-helix domains; Region: HTH; cl00088 205922009867 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 205922009868 dimerization interface [polypeptide binding]; other site 205922009869 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 205922009870 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 205922009871 active site 205922009872 tetramer interface [polypeptide binding]; other site 205922009873 D-galactonate transporter; Region: 2A0114; TIGR00893 205922009874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922009875 putative substrate translocation pore; other site 205922009876 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 205922009877 Helix-turn-helix domains; Region: HTH; cl00088 205922009878 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 205922009879 putative dimerization interface [polypeptide binding]; other site 205922009880 putative substrate binding pocket [chemical binding]; other site 205922009881 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 205922009882 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 205922009883 nudix motif; other site 205922009884 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 205922009885 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 205922009886 NodB motif; other site 205922009887 active site 205922009888 catalytic site [active] 205922009889 metal binding site [ion binding]; metal-binding site 205922009890 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922009891 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 205922009892 membrane-bound complex binding site; other site 205922009893 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922009894 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 205922009895 substrate binding pocket [chemical binding]; other site 205922009896 membrane-bound complex binding site; other site 205922009897 hinge residues; other site 205922009898 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922009899 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922009900 dimer interface [polypeptide binding]; other site 205922009901 conserved gate region; other site 205922009902 putative PBP binding loops; other site 205922009903 ABC-ATPase subunit interface; other site 205922009904 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 205922009905 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 205922009906 AzlC protein; Region: AzlC; cl00570 205922009907 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 205922009908 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 205922009909 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 205922009910 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 205922009911 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922009912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922009913 active site 205922009914 phosphorylation site [posttranslational modification] 205922009915 intermolecular recognition site; other site 205922009916 dimerization interface [polypeptide binding]; other site 205922009917 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 205922009918 DNA binding site [nucleotide binding] 205922009919 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922009920 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 205922009921 substrate binding pocket [chemical binding]; other site 205922009922 membrane-bound complex binding site; other site 205922009923 hinge residues; other site 205922009924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 205922009925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922009926 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 205922009927 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 205922009928 non-specific DNA binding site [nucleotide binding]; other site 205922009929 salt bridge; other site 205922009930 sequence-specific DNA binding site [nucleotide binding]; other site 205922009931 Cupin domain; Region: Cupin_2; cl09118 205922009932 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 205922009933 EamA-like transporter family; Region: EamA; cl01037 205922009934 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 205922009935 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 205922009936 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 205922009937 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 205922009938 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 205922009939 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 205922009940 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 205922009941 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 205922009942 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 205922009943 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 205922009944 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 205922009945 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 205922009946 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 205922009947 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 205922009948 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922009949 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 205922009950 N-terminal plug; other site 205922009951 ligand-binding site [chemical binding]; other site 205922009952 NMT1-like family; Region: NMT1_2; cl15260 205922009953 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 205922009954 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 205922009955 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922009956 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922009957 dimer interface [polypeptide binding]; other site 205922009958 putative CheW interface [polypeptide binding]; other site 205922009959 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 205922009960 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922009961 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922009962 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 205922009963 dimer interface [polypeptide binding]; other site 205922009964 N-terminal domain interface [polypeptide binding]; other site 205922009965 putative substrate binding pocket (H-site) [chemical binding]; other site 205922009966 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 205922009967 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 205922009968 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 205922009969 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 205922009970 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922009971 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 205922009972 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922009973 putative NAD(P) binding site [chemical binding]; other site 205922009974 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 205922009975 dimerization interface [polypeptide binding]; other site 205922009976 putative DNA binding site [nucleotide binding]; other site 205922009977 putative Zn2+ binding site [ion binding]; other site 205922009978 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 205922009979 Ligand Binding Site [chemical binding]; other site 205922009980 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 205922009981 Ligand Binding Site [chemical binding]; other site 205922009982 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922009983 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 205922009984 Ligand Binding Site [chemical binding]; other site 205922009985 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 205922009986 Ligand Binding Site [chemical binding]; other site 205922009987 Predicted membrane protein [Function unknown]; Region: COG3174 205922009988 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 205922009989 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 205922009990 Ligand Binding Site [chemical binding]; other site 205922009991 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 205922009992 Ligand Binding Site [chemical binding]; other site 205922009993 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 205922009994 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 205922009995 ligand binding site [chemical binding]; other site 205922009996 flexible hinge region; other site 205922009997 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 205922009998 putative switch regulator; other site 205922009999 non-specific DNA interactions [nucleotide binding]; other site 205922010000 DNA binding site [nucleotide binding] 205922010001 sequence specific DNA binding site [nucleotide binding]; other site 205922010002 putative cAMP binding site [chemical binding]; other site 205922010003 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 205922010004 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 205922010005 tetramer interface [polypeptide binding]; other site 205922010006 catalytic Zn binding site [ion binding]; other site 205922010007 NADP binding site [chemical binding]; other site 205922010008 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 205922010009 Ligand Binding Site [chemical binding]; other site 205922010010 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 205922010011 Thermostable hemolysin; Region: T_hemolysin; pfam12261 205922010012 AMP-binding enzyme; Region: AMP-binding; cl15778 205922010013 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 205922010014 heme binding pocket [chemical binding]; other site 205922010015 heme ligand [chemical binding]; other site 205922010016 short chain dehydrogenase; Provisional; Region: PRK09072 205922010017 classical (c) SDRs; Region: SDR_c; cd05233 205922010018 NAD(P) binding site [chemical binding]; other site 205922010019 active site 205922010020 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 205922010021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922010022 active site 205922010023 phosphorylation site [posttranslational modification] 205922010024 intermolecular recognition site; other site 205922010025 dimerization interface [polypeptide binding]; other site 205922010026 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 205922010027 DNA binding site [nucleotide binding] 205922010028 sensor protein QseC; Provisional; Region: PRK10337 205922010029 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922010030 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 205922010031 dimer interface [polypeptide binding]; other site 205922010032 phosphorylation site [posttranslational modification] 205922010033 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922010034 ATP binding site [chemical binding]; other site 205922010035 G-X-G motif; other site 205922010036 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922010037 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010038 putative substrate translocation pore; other site 205922010039 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922010040 Helix-turn-helix domains; Region: HTH; cl00088 205922010041 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 205922010042 dimerization interface [polypeptide binding]; other site 205922010043 choline dehydrogenase; Validated; Region: PRK02106 205922010044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010045 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922010046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010047 putative substrate translocation pore; other site 205922010048 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922010049 Domain of unknown function (DUF427); Region: DUF427; cl00998 205922010050 H+ Antiporter protein; Region: 2A0121; TIGR00900 205922010051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010052 putative substrate translocation pore; other site 205922010053 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 205922010054 active site 205922010055 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922010056 DNA topoisomerase III; Provisional; Region: PRK07726 205922010057 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 205922010058 active site 205922010059 putative interdomain interaction site [polypeptide binding]; other site 205922010060 putative metal-binding site [ion binding]; other site 205922010061 putative nucleotide binding site [chemical binding]; other site 205922010062 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 205922010063 domain I; other site 205922010064 DNA binding groove [nucleotide binding] 205922010065 phosphate binding site [ion binding]; other site 205922010066 domain II; other site 205922010067 domain III; other site 205922010068 nucleotide binding site [chemical binding]; other site 205922010069 catalytic site [active] 205922010070 domain IV; other site 205922010071 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922010072 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 205922010073 Helix-turn-helix domains; Region: HTH; cl00088 205922010074 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 205922010075 dimerization interface [polypeptide binding]; other site 205922010076 cyanate hydratase; Validated; Region: PRK02866 205922010077 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 205922010078 oligomer interface [polypeptide binding]; other site 205922010079 active site 205922010080 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922010081 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 205922010082 active site clefts [active] 205922010083 zinc binding site [ion binding]; other site 205922010084 dimer interface [polypeptide binding]; other site 205922010085 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 205922010086 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 205922010087 NAD(P) binding site [chemical binding]; other site 205922010088 catalytic residues [active] 205922010089 Glutaminase; Region: Glutaminase; cl00907 205922010090 DoxX; Region: DoxX; cl00976 205922010091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 205922010092 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 205922010093 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 205922010094 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 205922010095 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922010096 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 205922010097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922010098 active site 205922010099 phosphorylation site [posttranslational modification] 205922010100 intermolecular recognition site; other site 205922010101 dimerization interface [polypeptide binding]; other site 205922010102 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 205922010103 DNA binding site [nucleotide binding] 205922010104 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 205922010105 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922010106 dimerization interface [polypeptide binding]; other site 205922010107 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 205922010108 dimer interface [polypeptide binding]; other site 205922010109 phosphorylation site [posttranslational modification] 205922010110 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922010111 ATP binding site [chemical binding]; other site 205922010112 G-X-G motif; other site 205922010113 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922010114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010115 putative substrate translocation pore; other site 205922010116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922010117 Helix-turn-helix domains; Region: HTH; cl00088 205922010118 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 205922010119 putative substrate binding pocket [chemical binding]; other site 205922010120 putative dimerization interface [polypeptide binding]; other site 205922010121 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 205922010122 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 205922010123 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 205922010124 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 205922010125 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 205922010126 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 205922010127 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 205922010128 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 205922010129 putative molybdopterin cofactor binding site [chemical binding]; other site 205922010130 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 205922010131 putative molybdopterin cofactor binding site; other site 205922010132 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 205922010133 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 205922010134 FeS/SAM binding site; other site 205922010135 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 205922010136 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 205922010137 sensor protein RstB; Provisional; Region: PRK10604 205922010138 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922010139 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 205922010140 dimer interface [polypeptide binding]; other site 205922010141 phosphorylation site [posttranslational modification] 205922010142 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922010143 ATP binding site [chemical binding]; other site 205922010144 Mg2+ binding site [ion binding]; other site 205922010145 G-X-G motif; other site 205922010146 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 205922010147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922010148 active site 205922010149 phosphorylation site [posttranslational modification] 205922010150 intermolecular recognition site; other site 205922010151 dimerization interface [polypeptide binding]; other site 205922010152 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 205922010153 DNA binding site [nucleotide binding] 205922010154 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 205922010155 active site 205922010156 dinuclear metal binding site [ion binding]; other site 205922010157 dimerization interface [polypeptide binding]; other site 205922010158 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 205922010159 universal stress protein UspE; Provisional; Region: PRK11175 205922010160 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 205922010161 Ligand Binding Site [chemical binding]; other site 205922010162 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 205922010163 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 205922010164 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 205922010165 substrate binding site [chemical binding]; other site 205922010166 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 205922010167 substrate binding site [chemical binding]; other site 205922010168 ligand binding site [chemical binding]; other site 205922010169 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 205922010170 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 205922010171 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 205922010172 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 205922010173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010174 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 205922010175 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 205922010176 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 205922010177 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 205922010178 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 205922010179 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 205922010180 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 205922010181 Protein of unknown function (DUF770); Region: DUF770; cl01402 205922010182 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 205922010183 Protein of unknown function (DUF877); Region: DUF877; pfam05943 205922010184 Protein of unknown function (DUF796); Region: DUF796; cl01226 205922010185 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 205922010186 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 205922010187 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 205922010188 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 205922010189 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 205922010190 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 205922010191 Walker A motif; other site 205922010192 ATP binding site [chemical binding]; other site 205922010193 Walker B motif; other site 205922010194 arginine finger; other site 205922010195 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 205922010196 Walker A motif; other site 205922010197 ATP binding site [chemical binding]; other site 205922010198 Walker B motif; other site 205922010199 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 205922010200 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922010201 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922010202 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922010203 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 205922010204 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 205922010205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 205922010206 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 205922010207 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 205922010208 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 205922010209 putative active site [active] 205922010210 putative substrate binding site [chemical binding]; other site 205922010211 ATP binding site [chemical binding]; other site 205922010212 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205922010213 classical (c) SDRs; Region: SDR_c; cd05233 205922010214 NAD(P) binding site [chemical binding]; other site 205922010215 active site 205922010216 Predicted membrane protein [Function unknown]; Region: COG2860 205922010217 UPF0126 domain; Region: UPF0126; pfam03458 205922010218 UPF0126 domain; Region: UPF0126; pfam03458 205922010219 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 205922010220 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 205922010221 PAS domain; Region: PAS_9; pfam13426 205922010222 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 205922010223 PAS domain; Region: PAS_9; pfam13426 205922010224 PAS domain S-box; Region: sensory_box; TIGR00229 205922010225 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 205922010226 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 205922010227 DNA binding residues [nucleotide binding] 205922010228 dimerization interface [polypeptide binding]; other site 205922010229 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 205922010230 Helix-turn-helix domains; Region: HTH; cl00088 205922010231 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 205922010232 putative dimerization interface [polypeptide binding]; other site 205922010233 putative substrate binding pocket [chemical binding]; other site 205922010234 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922010235 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922010236 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922010237 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922010238 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922010239 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 205922010240 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 205922010241 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922010242 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922010243 Helix-turn-helix domains; Region: HTH; cl00088 205922010244 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 205922010245 dimerization interface [polypeptide binding]; other site 205922010246 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 205922010247 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 205922010248 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 205922010249 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 205922010250 Flavoprotein; Region: Flavoprotein; cl08021 205922010251 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 205922010252 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 205922010253 P-loop, Walker A motif; other site 205922010254 Base recognition motif; other site 205922010255 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 205922010256 xanthine permease; Region: pbuX; TIGR03173 205922010257 amidohydrolase; Provisional; Region: PRK12393 205922010258 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 205922010259 active site 205922010260 putative substrate binding pocket [chemical binding]; other site 205922010261 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 205922010262 putative active site [active] 205922010263 putative metal binding site [ion binding]; other site 205922010264 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 205922010265 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922010266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922010267 Uncharacterized conserved protein [Function unknown]; Region: COG2128 205922010268 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922010269 DHH family; Region: DHH; pfam01368 205922010270 allantoate amidohydrolase; Reviewed; Region: PRK12893 205922010271 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 205922010272 active site 205922010273 metal binding site [ion binding]; metal-binding site 205922010274 dimer interface [polypeptide binding]; other site 205922010275 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 205922010276 Na binding site [ion binding]; other site 205922010277 putative substrate binding site [chemical binding]; other site 205922010278 phenylhydantoinase; Validated; Region: PRK08323 205922010279 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 205922010280 tetramer interface [polypeptide binding]; other site 205922010281 active site 205922010282 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 205922010283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010284 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 205922010285 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 205922010286 homodimer interface [polypeptide binding]; other site 205922010287 active site 205922010288 FMN binding site [chemical binding]; other site 205922010289 substrate binding site [chemical binding]; other site 205922010290 4Fe-4S binding domain; Region: Fer4; cl02805 205922010291 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 205922010292 Helix-turn-helix domains; Region: HTH; cl00088 205922010293 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 205922010294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922010295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922010296 Coenzyme A binding pocket [chemical binding]; other site 205922010297 Bacterial Ig-like domain; Region: Big_5; cl01012 205922010298 Copper resistance protein D; Region: CopD; cl00563 205922010299 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 205922010300 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922010301 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922010302 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922010303 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010304 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 205922010305 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 205922010306 outer membrane porin, OprD family; Region: OprD; pfam03573 205922010307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010308 active site 205922010309 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 205922010310 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 205922010311 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 205922010312 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 205922010313 DctM-like transporters; Region: DctM; pfam06808 205922010314 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 205922010315 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 205922010316 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 205922010317 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 205922010318 dimerization interface [polypeptide binding]; other site 205922010319 putative DNA binding site [nucleotide binding]; other site 205922010320 putative Zn2+ binding site [ion binding]; other site 205922010321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922010322 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 205922010323 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 205922010324 Helix-turn-helix domains; Region: HTH; cl00088 205922010325 AsnC family; Region: AsnC_trans_reg; pfam01037 205922010326 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 205922010327 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 205922010328 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 205922010329 tetramer interface [polypeptide binding]; other site 205922010330 TPP-binding site [chemical binding]; other site 205922010331 heterodimer interface [polypeptide binding]; other site 205922010332 phosphorylation loop region [posttranslational modification] 205922010333 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 205922010334 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 205922010335 alpha subunit interface [polypeptide binding]; other site 205922010336 TPP binding site [chemical binding]; other site 205922010337 heterodimer interface [polypeptide binding]; other site 205922010338 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 205922010339 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 205922010340 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 205922010341 E3 interaction surface; other site 205922010342 lipoyl attachment site [posttranslational modification]; other site 205922010343 e3 binding domain; Region: E3_binding; pfam02817 205922010344 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 205922010345 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 205922010346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922010347 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205922010348 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 205922010349 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 205922010350 homodimer interface [polypeptide binding]; other site 205922010351 substrate-cofactor binding pocket; other site 205922010352 catalytic residue [active] 205922010353 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 205922010354 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 205922010355 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 205922010356 FeS/SAM binding site; other site 205922010357 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922010358 classical (c) SDRs; Region: SDR_c; cd05233 205922010359 NAD(P) binding site [chemical binding]; other site 205922010360 active site 205922010361 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 205922010362 dimerization interface [polypeptide binding]; other site 205922010363 putative DNA binding site [nucleotide binding]; other site 205922010364 putative Zn2+ binding site [ion binding]; other site 205922010365 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 205922010366 Cation efflux family; Region: Cation_efflux; cl00316 205922010367 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 205922010368 putative metal binding site [ion binding]; other site 205922010369 putative homodimer interface [polypeptide binding]; other site 205922010370 putative homotetramer interface [polypeptide binding]; other site 205922010371 putative homodimer-homodimer interface [polypeptide binding]; other site 205922010372 putative allosteric switch controlling residues; other site 205922010373 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922010374 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 205922010375 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 205922010376 catalytic residues [active] 205922010377 catalytic nucleophile [active] 205922010378 Recombinase; Region: Recombinase; pfam07508 205922010379 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 205922010380 Photosystem II protein; Region: PSII; cl08223 205922010381 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 205922010382 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 205922010383 catalytic residues [active] 205922010384 catalytic nucleophile [active] 205922010385 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 205922010386 PAS fold; Region: PAS_3; pfam08447 205922010387 putative active site [active] 205922010388 heme pocket [chemical binding]; other site 205922010389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922010390 metal binding site [ion binding]; metal-binding site 205922010391 active site 205922010392 I-site; other site 205922010393 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 205922010394 citrate-proton symporter; Provisional; Region: PRK15075 205922010395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010396 putative substrate translocation pore; other site 205922010397 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 205922010398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922010399 Helix-turn-helix domains; Region: HTH; cl00088 205922010400 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 205922010401 putative dimerization interface [polypeptide binding]; other site 205922010402 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 205922010403 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922010404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010405 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 205922010406 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 205922010407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010408 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 205922010409 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 205922010410 hypothetical protein; Provisional; Region: PRK10040 205922010411 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922010412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922010413 active site 205922010414 phosphorylation site [posttranslational modification] 205922010415 intermolecular recognition site; other site 205922010416 dimerization interface [polypeptide binding]; other site 205922010417 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 205922010418 DNA binding site [nucleotide binding] 205922010419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922010420 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 205922010421 dimerization interface [polypeptide binding]; other site 205922010422 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 205922010423 dimer interface [polypeptide binding]; other site 205922010424 phosphorylation site [posttranslational modification] 205922010425 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922010426 ATP binding site [chemical binding]; other site 205922010427 Mg2+ binding site [ion binding]; other site 205922010428 G-X-G motif; other site 205922010429 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 205922010430 putative hydrophobic ligand binding site [chemical binding]; other site 205922010431 protein interface [polypeptide binding]; other site 205922010432 gate; other site 205922010433 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922010434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010435 NAD(P) binding site [chemical binding]; other site 205922010436 active site 205922010437 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 205922010438 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 205922010439 active site 205922010440 catalytic tetrad [active] 205922010441 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 205922010442 Helix-turn-helix domains; Region: HTH; cl00088 205922010443 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 205922010444 dimerization interface [polypeptide binding]; other site 205922010445 substrate binding pocket [chemical binding]; other site 205922010446 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 205922010447 putative active site [active] 205922010448 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 205922010449 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 205922010450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922010451 catalytic residue [active] 205922010452 Phospholipid methyltransferase; Region: PEMT; cl00763 205922010453 putative phosphatase; Provisional; Region: PRK11587 205922010454 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 205922010455 motif II; other site 205922010456 Response regulator receiver domain; Region: Response_reg; pfam00072 205922010457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922010458 active site 205922010459 phosphorylation site [posttranslational modification] 205922010460 intermolecular recognition site; other site 205922010461 dimerization interface [polypeptide binding]; other site 205922010462 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 205922010463 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 205922010464 S-adenosylmethionine binding site [chemical binding]; other site 205922010465 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 205922010466 DNA binding residues [nucleotide binding] 205922010467 dimerization interface [polypeptide binding]; other site 205922010468 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922010469 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 205922010470 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 205922010471 homodimer interface [polypeptide binding]; other site 205922010472 homotetramer interface [polypeptide binding]; other site 205922010473 active site pocket [active] 205922010474 cleavage site 205922010475 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922010476 Helix-turn-helix domains; Region: HTH; cl00088 205922010477 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922010478 Helix-turn-helix domains; Region: HTH; cl00088 205922010479 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 205922010480 CoenzymeA binding site [chemical binding]; other site 205922010481 subunit interaction site [polypeptide binding]; other site 205922010482 PHB binding site; other site 205922010483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922010484 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922010485 Coenzyme A binding pocket [chemical binding]; other site 205922010486 YceI-like domain; Region: YceI; cl01001 205922010487 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 205922010488 MatE; Region: MatE; cl10513 205922010489 MatE; Region: MatE; cl10513 205922010490 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 205922010491 Low molecular weight phosphatase family; Region: LMWPc; cl00105 205922010492 active site 205922010493 Chorismate mutase type II; Region: CM_2; cl00693 205922010494 Cache domain; Region: Cache_1; pfam02743 205922010495 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922010496 dimerization interface [polypeptide binding]; other site 205922010497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922010498 metal binding site [ion binding]; metal-binding site 205922010499 active site 205922010500 I-site; other site 205922010501 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 205922010502 Cytochrome c; Region: Cytochrom_C; cl11414 205922010503 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 205922010504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922010505 DNA-binding site [nucleotide binding]; DNA binding site 205922010506 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 205922010507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922010508 homodimer interface [polypeptide binding]; other site 205922010509 catalytic residue [active] 205922010510 EamA-like transporter family; Region: EamA; cl01037 205922010511 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 205922010512 Cupin domain; Region: Cupin_2; cl09118 205922010513 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922010514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922010515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922010516 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 205922010517 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922010518 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 205922010519 Sulfate transporter family; Region: Sulfate_transp; cl15842 205922010520 Sulfate transporter family; Region: Sulfate_transp; cl15842 205922010521 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 205922010522 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922010523 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922010524 Coenzyme A binding pocket [chemical binding]; other site 205922010525 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 205922010526 Helix-turn-helix domains; Region: HTH; cl00088 205922010527 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 205922010528 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 205922010529 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 205922010530 catalytic triad [active] 205922010531 conserved cis-peptide bond; other site 205922010532 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 205922010533 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 205922010534 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 205922010535 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 205922010536 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 205922010537 DNA binding site [nucleotide binding] 205922010538 active site 205922010539 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 205922010540 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 205922010541 dimer interface [polypeptide binding]; other site 205922010542 ADP-ribose binding site [chemical binding]; other site 205922010543 active site 205922010544 nudix motif; other site 205922010545 metal binding site [ion binding]; metal-binding site 205922010546 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 205922010547 putative active site [active] 205922010548 Chitin binding domain; Region: Chitin_bind_3; cl03871 205922010549 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 205922010550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922010551 Coenzyme A binding pocket [chemical binding]; other site 205922010552 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 205922010553 DsrE/DsrF-like family; Region: DrsE; cl00672 205922010554 DsrE/DsrF-like family; Region: DrsE; cl00672 205922010555 DsrE/DsrF-like family; Region: DrsE; cl00672 205922010556 DsrC like protein; Region: DsrC; cl01101 205922010557 hypothetical protein; Validated; Region: PRK09071 205922010558 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 205922010559 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 205922010560 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 205922010561 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922010562 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 205922010563 putative dimer interface [polypeptide binding]; other site 205922010564 N-terminal domain interface [polypeptide binding]; other site 205922010565 putative substrate binding pocket (H-site) [chemical binding]; other site 205922010566 siroheme synthase; Provisional; Region: cysG; PRK10637 205922010567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010568 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 205922010569 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922010570 seryl-tRNA synthetase; Provisional; Region: PRK05431 205922010571 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 205922010572 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 205922010573 dimer interface [polypeptide binding]; other site 205922010574 active site 205922010575 motif 1; other site 205922010576 motif 2; other site 205922010577 motif 3; other site 205922010578 CrcB-like protein; Region: CRCB; cl09114 205922010579 recombination factor protein RarA; Reviewed; Region: PRK13342 205922010580 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 205922010581 Walker A motif; other site 205922010582 ATP binding site [chemical binding]; other site 205922010583 Walker B motif; other site 205922010584 arginine finger; other site 205922010585 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 205922010586 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 205922010587 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 205922010588 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 205922010589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922010590 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 205922010591 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922010592 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 205922010593 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 205922010594 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922010595 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 205922010596 rRNA binding site [nucleotide binding]; other site 205922010597 predicted 30S ribosome binding site; other site 205922010598 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 205922010599 Clp amino terminal domain; Region: Clp_N; pfam02861 205922010600 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 205922010601 Walker A motif; other site 205922010602 ATP binding site [chemical binding]; other site 205922010603 Walker B motif; other site 205922010604 arginine finger; other site 205922010605 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 205922010606 Walker A motif; other site 205922010607 ATP binding site [chemical binding]; other site 205922010608 Walker B motif; other site 205922010609 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 205922010610 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 205922010611 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 205922010612 DNA-binding site [nucleotide binding]; DNA binding site 205922010613 RNA-binding motif; other site 205922010614 isocitrate dehydrogenase; Validated; Region: PRK07362 205922010615 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 205922010616 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 205922010617 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 205922010618 nudix motif; other site 205922010619 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 205922010620 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 205922010621 Protein of unknown function (DUF489); Region: DUF489; cl01097 205922010622 adenylosuccinate lyase; Provisional; Region: PRK09285 205922010623 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 205922010624 tetramer interface [polypeptide binding]; other site 205922010625 active site 205922010626 Uncharacterized conserved protein [Function unknown]; Region: COG2850 205922010627 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922010628 Coenzyme A binding pocket [chemical binding]; other site 205922010629 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922010630 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205922010631 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 205922010632 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 205922010633 tetramer interface [polypeptide binding]; other site 205922010634 active site 205922010635 Mg2+/Mn2+ binding site [ion binding]; other site 205922010636 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 205922010637 NADH dehydrogenase subunit B; Validated; Region: PRK06411 205922010638 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 205922010639 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 205922010640 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 205922010641 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 205922010642 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 205922010643 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 205922010644 putative dimer interface [polypeptide binding]; other site 205922010645 [2Fe-2S] cluster binding site [ion binding]; other site 205922010646 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 205922010647 SLBB domain; Region: SLBB; pfam10531 205922010648 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 205922010649 NADH dehydrogenase subunit G; Validated; Region: PRK08166 205922010650 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 205922010651 catalytic loop [active] 205922010652 iron binding site [ion binding]; other site 205922010653 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 205922010654 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 205922010655 [4Fe-4S] binding site [ion binding]; other site 205922010656 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 205922010657 NADH dehydrogenase; Region: NADHdh; cl00469 205922010658 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 205922010659 4Fe-4S binding domain; Region: Fer4; cl02805 205922010660 4Fe-4S binding domain; Region: Fer4; cl02805 205922010661 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 205922010662 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 205922010663 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 205922010664 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 205922010665 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 205922010666 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 205922010667 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 205922010668 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 205922010669 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 205922010670 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 205922010671 outer membrane porin, OprD family; Region: OprD; pfam03573 205922010672 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922010673 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 205922010674 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 205922010675 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922010676 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 205922010677 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 205922010678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922010679 active site 205922010680 phosphorylation site [posttranslational modification] 205922010681 intermolecular recognition site; other site 205922010682 dimerization interface [polypeptide binding]; other site 205922010683 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 205922010684 DNA binding site [nucleotide binding] 205922010685 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 205922010686 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922010687 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 205922010688 dimer interface [polypeptide binding]; other site 205922010689 phosphorylation site [posttranslational modification] 205922010690 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922010691 ATP binding site [chemical binding]; other site 205922010692 Mg2+ binding site [ion binding]; other site 205922010693 G-X-G motif; other site 205922010694 YcaO-like family; Region: YcaO; pfam02624 205922010695 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 205922010696 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 205922010697 S-adenosylmethionine binding site [chemical binding]; other site 205922010698 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 205922010699 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 205922010700 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 205922010701 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 205922010702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922010703 dimer interface [polypeptide binding]; other site 205922010704 conserved gate region; other site 205922010705 putative PBP binding loops; other site 205922010706 ABC-ATPase subunit interface; other site 205922010707 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 205922010708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922010709 putative PBP binding loops; other site 205922010710 dimer interface [polypeptide binding]; other site 205922010711 ABC-ATPase subunit interface; other site 205922010712 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 205922010713 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 205922010714 Walker A/P-loop; other site 205922010715 ATP binding site [chemical binding]; other site 205922010716 Q-loop/lid; other site 205922010717 ABC transporter signature motif; other site 205922010718 Walker B; other site 205922010719 D-loop; other site 205922010720 H-loop/switch region; other site 205922010721 TOBE domain; Region: TOBE_2; cl01440 205922010722 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 205922010723 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 205922010724 Walker A/P-loop; other site 205922010725 ATP binding site [chemical binding]; other site 205922010726 Q-loop/lid; other site 205922010727 ABC transporter signature motif; other site 205922010728 Walker B; other site 205922010729 D-loop; other site 205922010730 H-loop/switch region; other site 205922010731 TOBE domain; Region: TOBE_2; cl01440 205922010732 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 205922010733 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 205922010734 Walker A motif; other site 205922010735 ATP binding site [chemical binding]; other site 205922010736 Walker B motif; other site 205922010737 arginine finger; other site 205922010738 Helix-turn-helix domains; Region: HTH; cl00088 205922010739 cation transport protein; Region: 2A0119; TIGR00898 205922010740 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 205922010741 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 205922010742 active site 205922010743 HIGH motif; other site 205922010744 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 205922010745 KMSKS motif; other site 205922010746 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 205922010747 tRNA binding surface [nucleotide binding]; other site 205922010748 anticodon binding site; other site 205922010749 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 205922010750 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205922010751 active site 205922010752 HIGH motif; other site 205922010753 nucleotide binding site [chemical binding]; other site 205922010754 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 205922010755 KMSKS motif; other site 205922010756 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 205922010757 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 205922010758 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 205922010759 substrate binding site [chemical binding]; other site 205922010760 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 205922010761 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 205922010762 putative active site [active] 205922010763 putative metal binding site [ion binding]; other site 205922010764 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922010765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010766 putative substrate translocation pore; other site 205922010767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010768 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 205922010769 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922010770 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922010771 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 205922010772 Helix-turn-helix domains; Region: HTH; cl00088 205922010773 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922010774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 205922010775 Family of unknown function (DUF490); Region: DUF490; pfam04357 205922010776 Family of unknown function (DUF490); Region: DUF490; pfam04357 205922010777 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 205922010778 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922010779 Surface antigen; Region: Bac_surface_Ag; cl03097 205922010780 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922010781 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 205922010782 putative catalytic site [active] 205922010783 putative phosphate binding site [ion binding]; other site 205922010784 active site 205922010785 metal binding site A [ion binding]; metal-binding site 205922010786 DNA binding site [nucleotide binding] 205922010787 putative AP binding site [nucleotide binding]; other site 205922010788 putative metal binding site B [ion binding]; other site 205922010789 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 205922010790 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922010791 ligand binding site [chemical binding]; other site 205922010792 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922010793 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 205922010794 FAD binding site [chemical binding]; other site 205922010795 substrate binding site [chemical binding]; other site 205922010796 catalytic base [active] 205922010797 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 205922010798 Helix-turn-helix domains; Region: HTH; cl00088 205922010799 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 205922010800 substrate binding pocket [chemical binding]; other site 205922010801 dimerization interface [polypeptide binding]; other site 205922010802 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 205922010803 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 205922010804 DNA binding residues [nucleotide binding] 205922010805 putative dimer interface [polypeptide binding]; other site 205922010806 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 205922010807 active site 205922010808 catalytic residues [active] 205922010809 metal binding site [ion binding]; metal-binding site 205922010810 AMP-binding domain protein; Validated; Region: PRK08315 205922010811 AMP-binding enzyme; Region: AMP-binding; cl15778 205922010812 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922010813 isovaleryl-CoA dehydrogenase; Region: PLN02519 205922010814 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 205922010815 substrate binding site [chemical binding]; other site 205922010816 FAD binding site [chemical binding]; other site 205922010817 catalytic base [active] 205922010818 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 205922010819 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922010820 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922010821 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 205922010822 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 205922010823 substrate binding site [chemical binding]; other site 205922010824 oxyanion hole (OAH) forming residues; other site 205922010825 trimer interface [polypeptide binding]; other site 205922010826 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 205922010827 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922010828 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922010829 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 205922010830 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 205922010831 carboxyltransferase (CT) interaction site; other site 205922010832 biotinylation site [posttranslational modification]; other site 205922010833 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 205922010834 non-specific DNA binding site [nucleotide binding]; other site 205922010835 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 205922010836 salt bridge; other site 205922010837 sequence-specific DNA binding site [nucleotide binding]; other site 205922010838 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 205922010839 Catalytic site [active] 205922010840 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 205922010841 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 205922010842 active site 205922010843 Zn binding site [ion binding]; other site 205922010844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922010845 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 205922010846 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 205922010847 putative heme binding pocket [chemical binding]; other site 205922010848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922010849 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 205922010850 DNA binding residues [nucleotide binding] 205922010851 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 205922010852 Spore Coat Protein U domain; Region: SCPU; cl02253 205922010853 Spore Coat Protein U domain; Region: SCPU; cl02253 205922010854 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 205922010855 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 205922010856 PapC C-terminal domain; Region: PapC_C; pfam13953 205922010857 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 205922010858 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 205922010859 Spore Coat Protein U domain; Region: SCPU; cl02253 205922010860 Spore Coat Protein U domain; Region: SCPU; cl02253 205922010861 Spore Coat Protein U domain; Region: SCPU; cl02253 205922010862 Spore Coat Protein U domain; Region: SCPU; cl02253 205922010863 Predicted ATPase [General function prediction only]; Region: COG1485 205922010864 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 205922010865 Protein kinase domain; Region: Pkinase; pfam00069 205922010866 Catalytic domain of Protein Kinases; Region: PKc; cd00180 205922010867 active site 205922010868 ATP binding site [chemical binding]; other site 205922010869 substrate binding site [chemical binding]; other site 205922010870 activation loop (A-loop); other site 205922010871 Transcriptional regulator; Region: Transcrip_reg; cl00361 205922010872 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922010873 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922010874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010875 FAD dependent oxidoreductase; Region: DAO; pfam01266 205922010876 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 205922010877 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010878 putative substrate translocation pore; other site 205922010879 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 205922010880 Helix-turn-helix domains; Region: HTH; cl00088 205922010881 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 205922010882 dimerization interface [polypeptide binding]; other site 205922010883 Helix-turn-helix domains; Region: HTH; cl00088 205922010884 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 205922010885 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 205922010886 dimerization interface [polypeptide binding]; other site 205922010887 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 205922010888 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 205922010889 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922010890 catalytic residue [active] 205922010891 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 205922010892 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 205922010893 motif II; other site 205922010894 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 205922010895 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 205922010896 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 205922010897 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922010898 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 205922010899 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 205922010900 active site 205922010901 FMN binding site [chemical binding]; other site 205922010902 2,4-decadienoyl-CoA binding site; other site 205922010903 catalytic residue [active] 205922010904 4Fe-4S cluster binding site [ion binding]; other site 205922010905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922010906 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 205922010907 active site 205922010908 catalytic triad [active] 205922010909 dimer interface [polypeptide binding]; other site 205922010910 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922010911 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922010912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922010913 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 205922010914 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922010915 Helix-turn-helix domains; Region: HTH; cl00088 205922010916 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 205922010917 putative effector binding pocket; other site 205922010918 putative dimerization interface [polypeptide binding]; other site 205922010919 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922010920 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010921 putative substrate translocation pore; other site 205922010922 periplasmic folding chaperone; Provisional; Region: PRK10788 205922010923 SurA N-terminal domain; Region: SurA_N_3; cl07813 205922010924 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922010925 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 205922010926 IHF - DNA interface [nucleotide binding]; other site 205922010927 IHF dimer interface [polypeptide binding]; other site 205922010928 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 205922010929 Found in ATP-dependent protease La (LON); Region: LON; smart00464 205922010930 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 205922010931 Walker A motif; other site 205922010932 ATP binding site [chemical binding]; other site 205922010933 Walker B motif; other site 205922010934 arginine finger; other site 205922010935 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 205922010936 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 205922010937 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 205922010938 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 205922010939 Walker A motif; other site 205922010940 ATP binding site [chemical binding]; other site 205922010941 Walker B motif; other site 205922010942 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 205922010943 Clp protease; Region: CLP_protease; pfam00574 205922010944 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 205922010945 oligomer interface [polypeptide binding]; other site 205922010946 active site residues [active] 205922010947 trigger factor; Provisional; Region: tig; PRK01490 205922010948 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 205922010949 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 205922010950 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 205922010951 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 205922010952 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 205922010953 homodimer interface [polypeptide binding]; other site 205922010954 NADP binding site [chemical binding]; other site 205922010955 substrate binding site [chemical binding]; other site 205922010956 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 205922010957 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39A; cd02549 205922010958 putative active site [active] 205922010959 Integral membrane protein TerC family; Region: TerC; cl10468 205922010960 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 205922010961 Helix-turn-helix domains; Region: HTH; cl00088 205922010962 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 205922010963 putative dimerization interface [polypeptide binding]; other site 205922010964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010965 putative substrate translocation pore; other site 205922010966 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922010967 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 205922010968 Protein of unknown function, DUF480; Region: DUF480; cl01209 205922010969 Cupin domain; Region: Cupin_2; cl09118 205922010970 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 205922010971 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 205922010972 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 205922010973 shikimate binding site; other site 205922010974 NAD(P) binding site [chemical binding]; other site 205922010975 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 205922010976 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 205922010977 putative protease; Provisional; Region: PRK15452 205922010978 Peptidase family U32; Region: Peptidase_U32; cl03113 205922010979 Transcriptional regulators [Transcription]; Region: FadR; COG2186 205922010980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922010981 DNA-binding site [nucleotide binding]; DNA binding site 205922010982 FCD domain; Region: FCD; cl11656 205922010983 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922010984 D-galactonate transporter; Region: 2A0114; TIGR00893 205922010985 putative substrate translocation pore; other site 205922010986 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 205922010987 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 205922010988 active site 205922010989 tetramer interface [polypeptide binding]; other site 205922010990 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922010991 Helix-turn-helix domains; Region: HTH; cl00088 205922010992 The C-terminal substrate-domain of LysR-type transcriptional regulators for beta-lactamase genes, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_beta_lactamase; cd08484 205922010993 putative dimerization interface [polypeptide binding]; other site 205922010994 putative substrate binding pocket [chemical binding]; other site 205922010995 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922010996 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 205922010997 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 205922010998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922010999 Walker A/P-loop; other site 205922011000 ATP binding site [chemical binding]; other site 205922011001 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 205922011002 Q-loop/lid; other site 205922011003 ABC transporter signature motif; other site 205922011004 Walker B; other site 205922011005 D-loop; other site 205922011006 H-loop/switch region; other site 205922011007 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 205922011008 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 205922011009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922011010 Coenzyme A binding pocket [chemical binding]; other site 205922011011 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 205922011012 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 205922011013 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 205922011014 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 205922011015 active site 205922011016 catalytic residues [active] 205922011017 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 205922011018 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 205922011019 active site 205922011020 catalytic tetrad [active] 205922011021 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 205922011022 DNA polymerase II; Reviewed; Region: PRK05762 205922011023 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 205922011024 active site 205922011025 catalytic site [active] 205922011026 substrate binding site [chemical binding]; other site 205922011027 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 205922011028 active site 205922011029 metal-binding site 205922011030 FOG: CBS domain [General function prediction only]; Region: COG0517 205922011031 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 205922011032 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922011033 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 205922011034 C-terminal domain interface [polypeptide binding]; other site 205922011035 GSH binding site (G-site) [chemical binding]; other site 205922011036 dimer interface [polypeptide binding]; other site 205922011037 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 205922011038 dimer interface [polypeptide binding]; other site 205922011039 N-terminal domain interface [polypeptide binding]; other site 205922011040 substrate binding pocket (H-site) [chemical binding]; other site 205922011041 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 205922011042 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922011043 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922011044 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205922011045 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 205922011046 N-terminal plug; other site 205922011047 ligand-binding site [chemical binding]; other site 205922011048 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 205922011049 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 205922011050 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 205922011051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922011052 dimer interface [polypeptide binding]; other site 205922011053 conserved gate region; other site 205922011054 putative PBP binding loops; other site 205922011055 ABC-ATPase subunit interface; other site 205922011056 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 205922011057 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922011058 dimer interface [polypeptide binding]; other site 205922011059 conserved gate region; other site 205922011060 putative PBP binding loops; other site 205922011061 ABC-ATPase subunit interface; other site 205922011062 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 205922011063 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922011064 Walker A/P-loop; other site 205922011065 ATP binding site [chemical binding]; other site 205922011066 Q-loop/lid; other site 205922011067 ABC transporter signature motif; other site 205922011068 Walker B; other site 205922011069 D-loop; other site 205922011070 H-loop/switch region; other site 205922011071 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922011072 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 205922011073 Walker A/P-loop; other site 205922011074 ATP binding site [chemical binding]; other site 205922011075 Q-loop/lid; other site 205922011076 ABC transporter signature motif; other site 205922011077 Walker B; other site 205922011078 D-loop; other site 205922011079 H-loop/switch region; other site 205922011080 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205922011081 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 205922011082 RNA polymerase sigma factor; Provisional; Region: PRK12537 205922011083 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922011084 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 205922011085 DNA binding residues [nucleotide binding] 205922011086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 205922011087 Anti-sigma-K factor rskA; Region: RskA; pfam10099 205922011088 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 205922011089 hypothetical protein; Provisional; Region: PRK06184 205922011090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011091 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 205922011092 dimer interface [polypeptide binding]; other site 205922011093 active site 205922011094 Schiff base residues; other site 205922011095 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 205922011096 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 205922011097 C-terminal domain interface [polypeptide binding]; other site 205922011098 GSH binding site (G-site) [chemical binding]; other site 205922011099 dimer interface [polypeptide binding]; other site 205922011100 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 205922011101 dimer interface [polypeptide binding]; other site 205922011102 N-terminal domain interface [polypeptide binding]; other site 205922011103 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 205922011104 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 205922011105 active site residue [active] 205922011106 selenophosphate synthetase; Provisional; Region: PRK00943 205922011107 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 205922011108 dimerization interface [polypeptide binding]; other site 205922011109 putative ATP binding site [chemical binding]; other site 205922011110 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922011111 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011112 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011113 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922011114 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011115 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922011116 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011117 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922011118 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011119 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011120 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 205922011121 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 205922011122 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922011123 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 205922011124 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 205922011125 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922011126 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 205922011127 putative NAD(P) binding site [chemical binding]; other site 205922011128 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 205922011129 Cupin domain; Region: Cupin_2; cl09118 205922011130 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922011131 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922011132 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 205922011133 Protein of unknown function, DUF606; Region: DUF606; cl01273 205922011134 Protein of unknown function, DUF606; Region: DUF606; cl01273 205922011135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922011136 Helix-turn-helix domains; Region: HTH; cl00088 205922011137 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 205922011138 putative effector binding pocket; other site 205922011139 dimerization interface [polypeptide binding]; other site 205922011140 Cache domain; Region: Cache_2; cl07034 205922011141 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 205922011142 dimerization interface [polypeptide binding]; other site 205922011143 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922011144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922011145 dimer interface [polypeptide binding]; other site 205922011146 putative CheW interface [polypeptide binding]; other site 205922011147 Predicted permease [General function prediction only]; Region: COG2056 205922011148 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 205922011149 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 205922011150 dimerization interface [polypeptide binding]; other site 205922011151 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922011152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922011153 dimer interface [polypeptide binding]; other site 205922011154 putative CheW interface [polypeptide binding]; other site 205922011155 sensor protein PhoQ; Provisional; Region: PRK10815 205922011156 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011157 ATP binding site [chemical binding]; other site 205922011158 G-X-G motif; other site 205922011159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922011160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011161 active site 205922011162 phosphorylation site [posttranslational modification] 205922011163 intermolecular recognition site; other site 205922011164 dimerization interface [polypeptide binding]; other site 205922011165 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 205922011166 DNA binding site [nucleotide binding] 205922011167 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 205922011168 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 205922011169 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 205922011170 active site 205922011171 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922011172 Na binding site [ion binding]; other site 205922011173 cytosine deaminase; Provisional; Region: PRK09230 205922011174 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 205922011175 active site 205922011176 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922011177 diaminopimelate epimerase; Provisional; Region: PRK13577 205922011178 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 205922011179 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922011180 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 205922011181 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 205922011182 N-terminal plug; other site 205922011183 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922011184 FecR protein; Region: FecR; pfam04773 205922011185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922011186 RNA polymerase sigma factor; Reviewed; Region: PRK12527 205922011187 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 205922011188 DNA binding residues [nucleotide binding] 205922011189 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 205922011190 S-adenosylmethionine binding site [chemical binding]; other site 205922011191 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 205922011192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922011193 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 205922011194 haemagglutination activity domain; Region: Haemagg_act; cl05436 205922011195 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 205922011196 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 205922011197 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 205922011198 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 205922011199 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 205922011200 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 205922011201 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 205922011202 Surface antigen; Region: Bac_surface_Ag; cl03097 205922011203 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 205922011204 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922011205 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922011206 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 205922011207 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922011208 putative substrate translocation pore; other site 205922011209 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922011210 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 205922011211 RNA polymerase sigma factor; Provisional; Region: PRK12528 205922011212 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922011213 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 205922011214 DNA binding residues [nucleotide binding] 205922011215 fec operon regulator FecR; Reviewed; Region: PRK09774 205922011216 FecR protein; Region: FecR; pfam04773 205922011217 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922011218 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205922011219 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 205922011220 N-terminal plug; other site 205922011221 ligand-binding site [chemical binding]; other site 205922011222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922011223 metal binding site [ion binding]; metal-binding site 205922011224 active site 205922011225 I-site; other site 205922011226 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 205922011227 intersubunit interface [polypeptide binding]; other site 205922011228 active site 205922011229 Zn2+ binding site [ion binding]; other site 205922011230 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 205922011231 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922011232 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 205922011233 motif II; other site 205922011234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922011235 Helix-turn-helix domains; Region: HTH; cl00088 205922011236 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 205922011237 dimerization interface [polypeptide binding]; other site 205922011238 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 205922011239 PAAR motif; Region: PAAR_motif; cl15808 205922011240 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 205922011241 B1 nucleotide binding pocket [chemical binding]; other site 205922011242 B2 nucleotide binding pocket [chemical binding]; other site 205922011243 CAS motifs; other site 205922011244 active site 205922011245 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 205922011246 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922011247 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922011248 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922011249 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 205922011250 Bacterial Ig-like domain; Region: Big_5; cl01012 205922011251 Copper resistance protein D; Region: CopD; cl00563 205922011252 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 205922011253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922011254 substrate binding pocket [chemical binding]; other site 205922011255 membrane-bound complex binding site; other site 205922011256 hinge residues; other site 205922011257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 205922011258 Transposase; Region: DEDD_Tnp_IS110; pfam01548 205922011259 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 205922011260 PAAR motif; Region: PAAR_motif; cl15808 205922011261 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 205922011262 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 205922011263 FMN binding site [chemical binding]; other site 205922011264 active site 205922011265 catalytic residues [active] 205922011266 substrate binding site [chemical binding]; other site 205922011267 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 205922011268 Bacitracin resistance protein BacA; Region: BacA; cl00858 205922011269 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 205922011270 DNA binding site [nucleotide binding] 205922011271 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 205922011272 DNA binding site [nucleotide binding] 205922011273 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 205922011274 Bacterial sugar transferase; Region: Bac_transf; cl00939 205922011275 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 205922011276 SLBB domain; Region: SLBB; pfam10531 205922011277 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 205922011278 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 205922011279 polysaccharide export protein Wza; Provisional; Region: PRK15078 205922011280 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 205922011281 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 205922011282 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 205922011283 NAD binding site [chemical binding]; other site 205922011284 homodimer interface [polypeptide binding]; other site 205922011285 active site 205922011286 substrate binding site [chemical binding]; other site 205922011287 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 205922011288 active site 205922011289 tetramer interface; other site 205922011290 polycystin cation channel protein; Region: PCC; TIGR00864 205922011291 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 205922011292 active site 205922011293 oxyanion hole [active] 205922011294 catalytic triad [active] 205922011295 OpgC protein; Region: OpgC_C; cl00792 205922011296 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922011297 MatE; Region: MatE; cl10513 205922011298 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 205922011299 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922011300 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 205922011301 putative ADP-binding pocket [chemical binding]; other site 205922011302 tyrosine kinase; Provisional; Region: PRK11519 205922011303 Chain length determinant protein; Region: Wzz; cl15801 205922011304 Chain length determinant protein; Region: Wzz; cl15801 205922011305 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 205922011306 P loop; other site 205922011307 Nucleotide binding site [chemical binding]; other site 205922011308 DTAP/Switch II; other site 205922011309 Switch I; other site 205922011310 Low molecular weight phosphatase family; Region: LMWPc; cd00115 205922011311 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 205922011312 active site 205922011313 transaldolase-like protein; Provisional; Region: PTZ00411 205922011314 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 205922011315 active site 205922011316 dimer interface [polypeptide binding]; other site 205922011317 catalytic residue [active] 205922011318 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 205922011319 anti sigma factor interaction site; other site 205922011320 regulatory phosphorylation site [posttranslational modification]; other site 205922011321 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 205922011322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011323 active site 205922011324 phosphorylation site [posttranslational modification] 205922011325 intermolecular recognition site; other site 205922011326 dimerization interface [polypeptide binding]; other site 205922011327 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 205922011328 VacJ like lipoprotein; Region: VacJ; cl01073 205922011329 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 205922011330 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 205922011331 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 205922011332 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 205922011333 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922011334 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 205922011335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011336 active site 205922011337 phosphorylation site [posttranslational modification] 205922011338 intermolecular recognition site; other site 205922011339 dimerization interface [polypeptide binding]; other site 205922011340 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 205922011341 DNA binding site [nucleotide binding] 205922011342 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 205922011343 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 205922011344 dimerization interface [polypeptide binding]; other site 205922011345 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 205922011346 dimer interface [polypeptide binding]; other site 205922011347 phosphorylation site [posttranslational modification] 205922011348 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011349 ATP binding site [chemical binding]; other site 205922011350 Mg2+ binding site [ion binding]; other site 205922011351 G-X-G motif; other site 205922011352 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 205922011353 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205922011354 FtsX-like permease family; Region: FtsX; cl15850 205922011355 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 205922011356 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 205922011357 Walker A/P-loop; other site 205922011358 ATP binding site [chemical binding]; other site 205922011359 Q-loop/lid; other site 205922011360 ABC transporter signature motif; other site 205922011361 Walker B; other site 205922011362 D-loop; other site 205922011363 H-loop/switch region; other site 205922011364 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 205922011365 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205922011366 FtsX-like permease family; Region: FtsX; cl15850 205922011367 PilZ domain; Region: PilZ; cl01260 205922011368 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 205922011369 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 205922011370 active site 205922011371 catalytic site [active] 205922011372 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 205922011373 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922011374 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205922011375 ApbE family; Region: ApbE; cl00643 205922011376 citrate-proton symporter; Provisional; Region: PRK15075 205922011377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922011378 putative substrate translocation pore; other site 205922011379 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 205922011380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011381 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 205922011382 transcription-repair coupling factor; Provisional; Region: PRK10689 205922011383 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 205922011384 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 205922011385 ATP binding site [chemical binding]; other site 205922011386 putative Mg++ binding site [ion binding]; other site 205922011387 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 205922011388 nucleotide binding region [chemical binding]; other site 205922011389 ATP-binding site [chemical binding]; other site 205922011390 TRCF domain; Region: TRCF; cl04088 205922011391 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 205922011392 Uncharacterized conserved protein [Function unknown]; Region: COG4715 205922011393 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 205922011394 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 205922011395 ATP binding site [chemical binding]; other site 205922011396 putative Mg++ binding site [ion binding]; other site 205922011397 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 205922011398 nucleotide binding region [chemical binding]; other site 205922011399 ATP-binding site [chemical binding]; other site 205922011400 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 205922011401 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 205922011402 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 205922011403 Helix-turn-helix domains; Region: HTH; cl00088 205922011404 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 205922011405 LexA repressor; Validated; Region: PRK00215 205922011406 Helix-turn-helix domains; Region: HTH; cl00088 205922011407 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 205922011408 Catalytic site [active] 205922011409 Cell division inhibitor SulA; Region: SulA; cl01880 205922011410 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 205922011411 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 205922011412 active site 205922011413 interdomain interaction site; other site 205922011414 putative metal-binding site [ion binding]; other site 205922011415 nucleotide binding site [chemical binding]; other site 205922011416 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 205922011417 domain I; other site 205922011418 DNA binding groove [nucleotide binding] 205922011419 phosphate binding site [ion binding]; other site 205922011420 domain II; other site 205922011421 domain III; other site 205922011422 nucleotide binding site [chemical binding]; other site 205922011423 catalytic site [active] 205922011424 domain IV; other site 205922011425 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205922011426 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205922011427 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 205922011428 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 205922011429 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 205922011430 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 205922011431 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 205922011432 dimer interface [polypeptide binding]; other site 205922011433 active site 205922011434 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 205922011435 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 205922011436 substrate binding site [chemical binding]; other site 205922011437 oxyanion hole (OAH) forming residues; other site 205922011438 trimer interface [polypeptide binding]; other site 205922011439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011440 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922011441 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 205922011442 Ligand Binding Site [chemical binding]; other site 205922011443 ABC transporter ATPase component; Reviewed; Region: PRK11147 205922011444 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922011445 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922011446 ABC transporter; Region: ABC_tran_2; pfam12848 205922011447 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922011448 lytic murein transglycosylase; Provisional; Region: PRK11619 205922011449 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922011450 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922011451 catalytic residue [active] 205922011452 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 205922011453 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922011454 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 205922011455 Walker A/P-loop; other site 205922011456 ATP binding site [chemical binding]; other site 205922011457 Q-loop/lid; other site 205922011458 ABC transporter signature motif; other site 205922011459 Walker B; other site 205922011460 D-loop; other site 205922011461 H-loop/switch region; other site 205922011462 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 205922011463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011464 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 205922011465 multidrug efflux protein; Reviewed; Region: PRK01766 205922011466 MatE; Region: MatE; cl10513 205922011467 MatE; Region: MatE; cl10513 205922011468 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 205922011469 CPxP motif; other site 205922011470 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 205922011471 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922011472 aconitate hydratase; Validated; Region: PRK09277 205922011473 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 205922011474 substrate binding site [chemical binding]; other site 205922011475 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 205922011476 ligand binding site [chemical binding]; other site 205922011477 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 205922011478 substrate binding site [chemical binding]; other site 205922011479 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922011480 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 205922011481 putative hydrophobic ligand binding site [chemical binding]; other site 205922011482 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 205922011483 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 205922011484 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 205922011485 allantoate amidohydrolase; Reviewed; Region: PRK12893 205922011486 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 205922011487 active site 205922011488 metal binding site [ion binding]; metal-binding site 205922011489 dimer interface [polypeptide binding]; other site 205922011490 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922011491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922011492 putative substrate translocation pore; other site 205922011493 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922011494 Helix-turn-helix domains; Region: HTH; cl00088 205922011495 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 205922011496 dimerization interface [polypeptide binding]; other site 205922011497 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 205922011498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011499 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 205922011500 intersubunit interface [polypeptide binding]; other site 205922011501 active site 205922011502 Zn2+ binding site [ion binding]; other site 205922011503 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922011504 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922011505 putative substrate translocation pore; other site 205922011506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922011507 Helix-turn-helix domains; Region: HTH; cl00088 205922011508 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 205922011509 dimerization interface [polypeptide binding]; other site 205922011510 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 205922011511 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 205922011512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922011513 threonine and homoserine efflux system; Provisional; Region: PRK10532 205922011514 EamA-like transporter family; Region: EamA; cl01037 205922011515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922011516 Helix-turn-helix domains; Region: HTH; cl00088 205922011517 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 205922011518 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 205922011519 putative NAD(P) binding site [chemical binding]; other site 205922011520 active site 205922011521 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 205922011522 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 205922011523 putative catalytic residue [active] 205922011524 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 205922011525 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922011526 putative NAD(P) binding site [chemical binding]; other site 205922011527 transcriptional regulator; Provisional; Region: PRK10632 205922011528 Helix-turn-helix domains; Region: HTH; cl00088 205922011529 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 205922011530 putative effector binding pocket; other site 205922011531 dimerization interface [polypeptide binding]; other site 205922011532 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 205922011533 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 205922011534 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 205922011535 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 205922011536 active site 205922011537 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 205922011538 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 205922011539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922011540 catalytic residue [active] 205922011541 LysE type translocator; Region: LysE; cl00565 205922011542 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922011543 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 205922011544 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 205922011545 active site 205922011546 dimer interface [polypeptide binding]; other site 205922011547 non-prolyl cis peptide bond; other site 205922011548 insertion regions; other site 205922011549 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 205922011550 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 205922011551 Flavin binding site [chemical binding]; other site 205922011552 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 205922011553 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 205922011554 Walker A motif; other site 205922011555 ATP binding site [chemical binding]; other site 205922011556 Walker B motif; other site 205922011557 arginine finger; other site 205922011558 Helix-turn-helix domains; Region: HTH; cl00088 205922011559 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922011560 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 205922011561 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 205922011562 DNA binding residues [nucleotide binding] 205922011563 dimer interface [polypeptide binding]; other site 205922011564 [2Fe-2S] cluster binding site [ion binding]; other site 205922011565 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 205922011566 putative dimer interface [polypeptide binding]; other site 205922011567 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922011568 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 205922011569 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922011570 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 205922011571 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922011572 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 205922011573 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 205922011574 metal binding site [ion binding]; metal-binding site 205922011575 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 205922011576 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 205922011577 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 205922011578 ABC-ATPase subunit interface; other site 205922011579 dimer interface [polypeptide binding]; other site 205922011580 putative PBP binding regions; other site 205922011581 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 205922011582 MbtH-like protein; Region: MbtH; cl01279 205922011583 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 205922011584 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 205922011585 inhibitor-cofactor binding pocket; inhibition site 205922011586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922011587 catalytic residue [active] 205922011588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922011589 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922011590 sensor protein QseC; Provisional; Region: PRK10337 205922011591 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 205922011592 dimer interface [polypeptide binding]; other site 205922011593 phosphorylation site [posttranslational modification] 205922011594 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011595 ATP binding site [chemical binding]; other site 205922011596 G-X-G motif; other site 205922011597 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 205922011598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011599 active site 205922011600 phosphorylation site [posttranslational modification] 205922011601 intermolecular recognition site; other site 205922011602 dimerization interface [polypeptide binding]; other site 205922011603 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 205922011604 DNA binding site [nucleotide binding] 205922011605 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 205922011606 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 205922011607 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 205922011608 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 205922011609 DsbD alpha interface [polypeptide binding]; other site 205922011610 catalytic residues [active] 205922011611 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 205922011612 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 205922011613 catalytic residues [active] 205922011614 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 205922011615 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 205922011616 dimerization domain [polypeptide binding]; other site 205922011617 dimer interface [polypeptide binding]; other site 205922011618 catalytic residues [active] 205922011619 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 205922011620 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922011621 peptide synthase; Validated; Region: PRK05691 205922011622 AMP-binding enzyme; Region: AMP-binding; cl15778 205922011623 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922011624 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922011625 AMP-binding enzyme; Region: AMP-binding; cl15778 205922011626 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922011627 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922011628 AMP-binding enzyme; Region: AMP-binding; cl15778 205922011629 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922011630 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 205922011631 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 205922011632 AMP-binding enzyme; Region: AMP-binding; cl15778 205922011633 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922011634 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 205922011635 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922011636 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922011637 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 205922011638 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 205922011639 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 205922011640 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922011641 substrate binding pocket [chemical binding]; other site 205922011642 membrane-bound complex binding site; other site 205922011643 hinge residues; other site 205922011644 Helix-turn-helix domains; Region: HTH; cl00088 205922011645 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 205922011646 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 205922011647 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922011648 NAD(P) binding site [chemical binding]; other site 205922011649 substrate binding site [chemical binding]; other site 205922011650 homotetramer interface [polypeptide binding]; other site 205922011651 active site 205922011652 homodimer interface [polypeptide binding]; other site 205922011653 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 205922011654 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922011655 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922011656 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922011657 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922011658 active site 205922011659 enoyl-CoA hydratase; Provisional; Region: PRK05995 205922011660 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 205922011661 substrate binding site [chemical binding]; other site 205922011662 oxyanion hole (OAH) forming residues; other site 205922011663 trimer interface [polypeptide binding]; other site 205922011664 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 205922011665 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922011666 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922011667 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 205922011668 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 205922011669 carboxyltransferase (CT) interaction site; other site 205922011670 biotinylation site [posttranslational modification]; other site 205922011671 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 205922011672 active site 205922011673 catalytic site [active] 205922011674 substrate binding site [chemical binding]; other site 205922011675 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 205922011676 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 205922011677 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 205922011678 MOSC domain; Region: MOSC; pfam03473 205922011679 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 205922011680 Response regulator receiver domain; Region: Response_reg; pfam00072 205922011681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011682 active site 205922011683 phosphorylation site [posttranslational modification] 205922011684 intermolecular recognition site; other site 205922011685 dimerization interface [polypeptide binding]; other site 205922011686 Histidine kinase; Region: HisKA_3; pfam07730 205922011687 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011688 ATP binding site [chemical binding]; other site 205922011689 Mg2+ binding site [ion binding]; other site 205922011690 G-X-G motif; other site 205922011691 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922011692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011693 active site 205922011694 phosphorylation site [posttranslational modification] 205922011695 intermolecular recognition site; other site 205922011696 dimerization interface [polypeptide binding]; other site 205922011697 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 205922011698 DNA binding residues [nucleotide binding] 205922011699 dimerization interface [polypeptide binding]; other site 205922011700 lipid kinase; Reviewed; Region: PRK13054 205922011701 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 205922011702 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 205922011703 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 205922011704 dimer interface [polypeptide binding]; other site 205922011705 putative functional site; other site 205922011706 putative MPT binding site; other site 205922011707 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 205922011708 MPT binding site; other site 205922011709 trimer interface [polypeptide binding]; other site 205922011710 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 205922011711 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 205922011712 GTP binding site; other site 205922011713 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 205922011714 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 205922011715 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 205922011716 probable active site [active] 205922011717 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922011718 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922011719 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922011720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011721 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 205922011722 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 205922011723 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 205922011724 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 205922011725 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 205922011726 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 205922011727 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922011728 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922011729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011730 active site 205922011731 phosphorylation site [posttranslational modification] 205922011732 intermolecular recognition site; other site 205922011733 dimerization interface [polypeptide binding]; other site 205922011734 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 205922011735 DNA binding residues [nucleotide binding] 205922011736 dimerization interface [polypeptide binding]; other site 205922011737 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 205922011738 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 205922011739 substrate binding pocket [chemical binding]; other site 205922011740 membrane-bound complex binding site; other site 205922011741 hinge residues; other site 205922011742 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 205922011743 substrate binding pocket [chemical binding]; other site 205922011744 membrane-bound complex binding site; other site 205922011745 hinge residues; other site 205922011746 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 205922011747 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 205922011748 dimer interface [polypeptide binding]; other site 205922011749 phosphorylation site [posttranslational modification] 205922011750 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011751 ATP binding site [chemical binding]; other site 205922011752 Mg2+ binding site [ion binding]; other site 205922011753 G-X-G motif; other site 205922011754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011755 active site 205922011756 phosphorylation site [posttranslational modification] 205922011757 intermolecular recognition site; other site 205922011758 dimerization interface [polypeptide binding]; other site 205922011759 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 205922011760 GAF domain; Region: GAF; cl15785 205922011761 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 205922011762 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 205922011763 GAF domain; Region: GAF; cl15785 205922011764 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 205922011765 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 205922011766 Walker A motif; other site 205922011767 ATP binding site [chemical binding]; other site 205922011768 Walker B motif; other site 205922011769 two component system sensor kinase SsrA; Provisional; Region: PRK15347 205922011770 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 205922011771 dimer interface [polypeptide binding]; other site 205922011772 phosphorylation site [posttranslational modification] 205922011773 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011774 ATP binding site [chemical binding]; other site 205922011775 Mg2+ binding site [ion binding]; other site 205922011776 G-X-G motif; other site 205922011777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011778 active site 205922011779 phosphorylation site [posttranslational modification] 205922011780 intermolecular recognition site; other site 205922011781 dimerization interface [polypeptide binding]; other site 205922011782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922011783 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 205922011784 catalytic residues [active] 205922011785 dimer interface [polypeptide binding]; other site 205922011786 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 205922011787 SelR domain; Region: SelR; pfam01641 205922011788 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 205922011789 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 205922011790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922011791 homodimer interface [polypeptide binding]; other site 205922011792 catalytic residue [active] 205922011793 Peptidase family M48; Region: Peptidase_M48; cl12018 205922011794 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922011795 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 205922011796 putative active site [active] 205922011797 metal binding site [ion binding]; metal-binding site 205922011798 helicase 45; Provisional; Region: PTZ00424 205922011799 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 205922011800 ATP binding site [chemical binding]; other site 205922011801 Mg++ binding site [ion binding]; other site 205922011802 motif III; other site 205922011803 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 205922011804 nucleotide binding region [chemical binding]; other site 205922011805 ATP-binding site [chemical binding]; other site 205922011806 DbpA RNA binding domain; Region: DbpA; pfam03880 205922011807 enoyl-CoA hydratase; Provisional; Region: PRK06563 205922011808 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 205922011809 substrate binding site [chemical binding]; other site 205922011810 oxyanion hole (OAH) forming residues; other site 205922011811 trimer interface [polypeptide binding]; other site 205922011812 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922011813 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 205922011814 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 205922011815 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 205922011816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922011817 Helix-turn-helix domains; Region: HTH; cl00088 205922011818 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 205922011819 dimerization interface [polypeptide binding]; other site 205922011820 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 205922011821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922011822 Helix-turn-helix domains; Region: HTH; cl00088 205922011823 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 205922011824 putative effector binding pocket; other site 205922011825 dimerization interface [polypeptide binding]; other site 205922011826 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 205922011827 Helix-turn-helix domains; Region: HTH; cl00088 205922011828 OsmC-like protein; Region: OsmC; cl00767 205922011829 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922011830 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 205922011831 substrate binding pocket [chemical binding]; other site 205922011832 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922011833 elongation factor P; Validated; Region: PRK00529 205922011834 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 205922011835 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 205922011836 RNA binding site [nucleotide binding]; other site 205922011837 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 205922011838 RNA binding site [nucleotide binding]; other site 205922011839 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 205922011840 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205922011841 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 205922011842 Helix-turn-helix domains; Region: HTH; cl00088 205922011843 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 205922011844 substrate binding site [chemical binding]; other site 205922011845 dimerization interface [polypeptide binding]; other site 205922011846 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 205922011847 Ligand Binding Site [chemical binding]; other site 205922011848 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 205922011849 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 205922011850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922011851 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 205922011852 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 205922011853 catalytic residues [active] 205922011854 PilZ domain; Region: PilZ; cl01260 205922011855 NeuB family; Region: NeuB; cl00496 205922011856 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 205922011857 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922011858 L,D-transpeptidase; Provisional; Region: PRK10260 205922011859 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 205922011860 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 205922011861 active site 205922011862 catalytic triad [active] 205922011863 oxyanion hole [active] 205922011864 switch loop; other site 205922011865 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 205922011866 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 205922011867 Walker A/P-loop; other site 205922011868 ATP binding site [chemical binding]; other site 205922011869 Q-loop/lid; other site 205922011870 ABC transporter signature motif; other site 205922011871 Walker B; other site 205922011872 D-loop; other site 205922011873 H-loop/switch region; other site 205922011874 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 205922011875 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 205922011876 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 205922011877 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 205922011878 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205922011879 DoxX; Region: DoxX; cl00976 205922011880 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 205922011881 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 205922011882 substrate binding pocket [chemical binding]; other site 205922011883 membrane-bound complex binding site; other site 205922011884 hinge residues; other site 205922011885 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922011886 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922011887 catalytic residue [active] 205922011888 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 205922011889 active site 205922011890 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 205922011891 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922011892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922011893 dimer interface [polypeptide binding]; other site 205922011894 putative CheW interface [polypeptide binding]; other site 205922011895 Terminase small subunit; Region: Terminase_2; cl01513 205922011896 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 205922011897 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 205922011898 active site 205922011899 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 205922011900 active site 2 [active] 205922011901 active site 1 [active] 205922011902 CHAD domain; Region: CHAD; cl10506 205922011903 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 205922011904 active site 205922011905 nucleophile elbow; other site 205922011906 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 205922011907 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 205922011908 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 205922011909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922011910 active site 205922011911 phosphorylation site [posttranslational modification] 205922011912 intermolecular recognition site; other site 205922011913 dimerization interface [polypeptide binding]; other site 205922011914 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 205922011915 DNA binding site [nucleotide binding] 205922011916 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 205922011917 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 205922011918 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 205922011919 Ligand Binding Site [chemical binding]; other site 205922011920 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 205922011921 dimer interface [polypeptide binding]; other site 205922011922 phosphorylation site [posttranslational modification] 205922011923 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922011924 ATP binding site [chemical binding]; other site 205922011925 Mg2+ binding site [ion binding]; other site 205922011926 G-X-G motif; other site 205922011927 K+-transporting ATPase, c chain; Region: KdpC; cl00944 205922011928 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 205922011929 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 205922011930 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922011931 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 205922011932 ethanolamine permease; Region: 2A0305; TIGR00908 205922011933 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 205922011934 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 205922011935 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922011936 Helix-turn-helix domains; Region: HTH; cl00088 205922011937 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 205922011938 dimer interface [polypeptide binding]; other site 205922011939 active site 205922011940 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 205922011941 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 205922011942 classical (c) SDRs; Region: SDR_c; cd05233 205922011943 NAD(P) binding site [chemical binding]; other site 205922011944 active site 205922011945 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 205922011946 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 205922011947 active site 205922011948 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 205922011949 active site 205922011950 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 205922011951 dimer interaction site [polypeptide binding]; other site 205922011952 substrate-binding tunnel; other site 205922011953 active site 205922011954 catalytic site [active] 205922011955 substrate binding site [chemical binding]; other site 205922011956 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 205922011957 putative trimer interface [polypeptide binding]; other site 205922011958 putative CoA binding site [chemical binding]; other site 205922011959 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 205922011960 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 205922011961 inhibitor-cofactor binding pocket; inhibition site 205922011962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922011963 catalytic residue [active] 205922011964 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922011965 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 205922011966 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 205922011967 Walker A/P-loop; other site 205922011968 ATP binding site [chemical binding]; other site 205922011969 Q-loop/lid; other site 205922011970 ABC transporter signature motif; other site 205922011971 Walker B; other site 205922011972 D-loop; other site 205922011973 H-loop/switch region; other site 205922011974 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 205922011975 putative carbohydrate binding site [chemical binding]; other site 205922011976 ABC-2 type transporter; Region: ABC2_membrane; cl11417 205922011977 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 205922011978 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 205922011979 NAD(P) binding site [chemical binding]; other site 205922011980 homodimer interface [polypeptide binding]; other site 205922011981 substrate binding site [chemical binding]; other site 205922011982 active site 205922011983 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 205922011984 Probable Catalytic site; other site 205922011985 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 205922011986 Mg++ binding site [ion binding]; other site 205922011987 putative catalytic motif [active] 205922011988 putative substrate binding site [chemical binding]; other site 205922011989 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205922011990 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 205922011991 putative NAD(P) binding site [chemical binding]; other site 205922011992 active site 205922011993 putative substrate binding site [chemical binding]; other site 205922011994 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 205922011995 Probable Catalytic site; other site 205922011996 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 205922011997 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 205922011998 substrate binding site; other site 205922011999 tetramer interface; other site 205922012000 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 205922012001 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 205922012002 NADP binding site [chemical binding]; other site 205922012003 active site 205922012004 putative substrate binding site [chemical binding]; other site 205922012005 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 205922012006 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 205922012007 NAD binding site [chemical binding]; other site 205922012008 substrate binding site [chemical binding]; other site 205922012009 homodimer interface [polypeptide binding]; other site 205922012010 active site 205922012011 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 205922012012 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 205922012013 IHF dimer interface [polypeptide binding]; other site 205922012014 IHF - DNA interface [nucleotide binding]; other site 205922012015 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 205922012016 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 205922012017 inhibitor-cofactor binding pocket; inhibition site 205922012018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012019 catalytic residue [active] 205922012020 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 205922012021 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922012022 ABC-2 type transporter; Region: ABC2_membrane; cl11417 205922012023 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 205922012024 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 205922012025 Walker A/P-loop; other site 205922012026 ATP binding site [chemical binding]; other site 205922012027 Q-loop/lid; other site 205922012028 ABC transporter signature motif; other site 205922012029 Walker B; other site 205922012030 D-loop; other site 205922012031 H-loop/switch region; other site 205922012032 OpgC protein; Region: OpgC_C; cl00792 205922012033 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 205922012034 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 205922012035 active site 205922012036 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 205922012037 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 205922012038 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922012039 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 205922012040 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 205922012041 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 205922012042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012043 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 205922012044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012045 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205922012046 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 205922012047 putative NAD(P) binding site [chemical binding]; other site 205922012048 active site 205922012049 putative substrate binding site [chemical binding]; other site 205922012050 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 205922012051 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 205922012052 RNA binding site [nucleotide binding]; other site 205922012053 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 205922012054 RNA binding site [nucleotide binding]; other site 205922012055 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 205922012056 RNA binding site [nucleotide binding]; other site 205922012057 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 205922012058 RNA binding site [nucleotide binding]; other site 205922012059 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 205922012060 RNA binding site [nucleotide binding]; other site 205922012061 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 205922012062 RNA binding site [nucleotide binding]; other site 205922012063 cytidylate kinase; Provisional; Region: cmk; PRK00023 205922012064 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 205922012065 CMP-binding site; other site 205922012066 The sites determining sugar specificity; other site 205922012067 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 205922012068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012069 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 205922012070 hinge; other site 205922012071 active site 205922012072 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 205922012073 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 205922012074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012075 homodimer interface [polypeptide binding]; other site 205922012076 catalytic residue [active] 205922012077 Chorismate mutase type II; Region: CM_2; cl00693 205922012078 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 205922012079 Prephenate dehydratase; Region: PDT; pfam00800 205922012080 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 205922012081 putative L-Phe binding site [chemical binding]; other site 205922012082 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 205922012083 homodimer interface [polypeptide binding]; other site 205922012084 substrate-cofactor binding pocket; other site 205922012085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012086 catalytic residue [active] 205922012087 DNA gyrase subunit A; Validated; Region: PRK05560 205922012088 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 205922012089 CAP-like domain; other site 205922012090 active site 205922012091 primary dimer interface [polypeptide binding]; other site 205922012092 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205922012093 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205922012094 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205922012095 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205922012096 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205922012097 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205922012098 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 205922012099 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 205922012100 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 205922012101 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 205922012102 active site 205922012103 putative substrate binding pocket [chemical binding]; other site 205922012104 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 205922012105 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 205922012106 S-adenosylmethionine binding site [chemical binding]; other site 205922012107 phosphoglycolate phosphatase; Provisional; Region: PRK13222 205922012108 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 205922012109 motif II; other site 205922012110 short chain dehydrogenase; Provisional; Region: PRK08703 205922012111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012112 NAD(P) binding site [chemical binding]; other site 205922012113 active site 205922012114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922012115 metal binding site [ion binding]; metal-binding site 205922012116 active site 205922012117 I-site; other site 205922012118 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 205922012119 PAS fold; Region: PAS; pfam00989 205922012120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922012121 metal binding site [ion binding]; metal-binding site 205922012122 active site 205922012123 I-site; other site 205922012124 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 205922012125 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 205922012126 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 205922012127 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 205922012128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922012129 Walker A/P-loop; other site 205922012130 ATP binding site [chemical binding]; other site 205922012131 Q-loop/lid; other site 205922012132 ABC transporter signature motif; other site 205922012133 Walker B; other site 205922012134 D-loop; other site 205922012135 H-loop/switch region; other site 205922012136 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 205922012137 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 205922012138 catalytic residues [active] 205922012139 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 205922012140 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 205922012141 active site residue [active] 205922012142 BolA-like protein; Region: BolA; cl00386 205922012143 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 205922012144 fumarate hydratase; Provisional; Region: PRK12425 205922012145 Class II fumarases; Region: Fumarase_classII; cd01362 205922012146 active site 205922012147 tetramer interface [polypeptide binding]; other site 205922012148 EamA-like transporter family; Region: EamA; cl01037 205922012149 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 205922012150 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 205922012151 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 205922012152 dimer interface [polypeptide binding]; other site 205922012153 active site 205922012154 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 205922012155 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 205922012156 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 205922012157 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 205922012158 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922012159 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 205922012160 Leucine-rich repeats; other site 205922012161 Substrate binding site [chemical binding]; other site 205922012162 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 205922012163 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 205922012164 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 205922012165 active site 205922012166 dimer interface [polypeptide binding]; other site 205922012167 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 205922012168 Ligand Binding Site [chemical binding]; other site 205922012169 Molecular Tunnel; other site 205922012170 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 205922012171 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922012172 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922012173 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 205922012174 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 205922012175 putative oligomer interface [polypeptide binding]; other site 205922012176 putative active site [active] 205922012177 metal binding site [ion binding]; metal-binding site 205922012178 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 205922012179 Global regulator protein family; Region: CsrA; cl00670 205922012180 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 205922012181 short chain dehydrogenase; Provisional; Region: PRK05650 205922012182 classical (c) SDRs; Region: SDR_c; cd05233 205922012183 NAD(P) binding site [chemical binding]; other site 205922012184 active site 205922012185 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 205922012186 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 205922012187 Sulfatase; Region: Sulfatase; cl10460 205922012188 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 205922012189 putative lipid binding site [chemical binding]; other site 205922012190 Flagellin N-methylase; Region: FliB; cl00497 205922012191 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 205922012192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922012193 DNA-binding site [nucleotide binding]; DNA binding site 205922012194 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 205922012195 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012196 homodimer interface [polypeptide binding]; other site 205922012197 catalytic residue [active] 205922012198 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922012199 ligand binding site [chemical binding]; other site 205922012200 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 205922012201 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 205922012202 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922012203 substrate binding pocket [chemical binding]; other site 205922012204 membrane-bound complex binding site; other site 205922012205 hinge residues; other site 205922012206 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 205922012207 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 205922012208 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 205922012209 Ligand binding site [chemical binding]; other site 205922012210 Electron transfer flavoprotein domain; Region: ETF; pfam01012 205922012211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012212 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 205922012213 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 205922012214 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 205922012215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922012216 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922012217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922012218 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 205922012219 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 205922012220 putative NAD(P) binding site [chemical binding]; other site 205922012221 putative substrate binding site [chemical binding]; other site 205922012222 catalytic Zn binding site [ion binding]; other site 205922012223 structural Zn binding site [ion binding]; other site 205922012224 dimer interface [polypeptide binding]; other site 205922012225 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922012226 Helix-turn-helix domains; Region: HTH; cl00088 205922012227 Bacterial transcriptional regulator; Region: IclR; pfam01614 205922012228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922012229 D-galactonate transporter; Region: 2A0114; TIGR00893 205922012230 putative substrate translocation pore; other site 205922012231 galactonate dehydratase; Provisional; Region: PRK14017 205922012232 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 205922012233 putative active site pocket [active] 205922012234 putative metal binding site [ion binding]; other site 205922012235 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 205922012236 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 205922012237 active site 205922012238 intersubunit interface [polypeptide binding]; other site 205922012239 catalytic residue [active] 205922012240 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 205922012241 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 205922012242 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 205922012243 PAAR motif; Region: PAAR_motif; cl15808 205922012244 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 205922012245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922012246 Coenzyme A binding pocket [chemical binding]; other site 205922012247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922012248 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 205922012249 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 205922012250 substrate binding site [chemical binding]; other site 205922012251 ATP binding site [chemical binding]; other site 205922012252 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922012253 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922012254 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 205922012255 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 205922012256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922012257 DNA-binding site [nucleotide binding]; DNA binding site 205922012258 UTRA domain; Region: UTRA; cl01230 205922012259 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205922012260 TM-ABC transporter signature motif; other site 205922012261 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 205922012262 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 205922012263 Walker A/P-loop; other site 205922012264 ATP binding site [chemical binding]; other site 205922012265 Q-loop/lid; other site 205922012266 ABC transporter signature motif; other site 205922012267 Walker B; other site 205922012268 D-loop; other site 205922012269 H-loop/switch region; other site 205922012270 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 205922012271 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 205922012272 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 205922012273 ligand binding site [chemical binding]; other site 205922012274 short chain dehydrogenase; Provisional; Region: PRK07063 205922012275 classical (c) SDRs; Region: SDR_c; cd05233 205922012276 NAD(P) binding site [chemical binding]; other site 205922012277 active site 205922012278 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 205922012279 Strictosidine synthase; Region: Str_synth; pfam03088 205922012280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922012281 DNA-binding site [nucleotide binding]; DNA binding site 205922012282 FCD domain; Region: FCD; cl11656 205922012283 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 205922012284 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 205922012285 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 205922012286 FeS/SAM binding site; other site 205922012287 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 205922012288 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922012289 Helix-turn-helix domains; Region: HTH; cl00088 205922012290 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 205922012291 active site 205922012292 PilZ domain; Region: PilZ; cl01260 205922012293 DNA polymerase III subunit delta'; Validated; Region: PRK05707 205922012294 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922012295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922012296 thymidylate kinase; Validated; Region: tmk; PRK00698 205922012297 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 205922012298 TMP-binding site; other site 205922012299 ATP-binding site [chemical binding]; other site 205922012300 YceG-like family; Region: YceG; pfam02618 205922012301 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 205922012302 dimerization interface [polypeptide binding]; other site 205922012303 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 205922012304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012305 catalytic residue [active] 205922012306 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 205922012307 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 205922012308 dimer interface [polypeptide binding]; other site 205922012309 active site 205922012310 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205922012311 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205922012312 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 205922012313 NAD(P) binding site [chemical binding]; other site 205922012314 homotetramer interface [polypeptide binding]; other site 205922012315 homodimer interface [polypeptide binding]; other site 205922012316 active site 205922012317 Acyl transferase domain; Region: Acyl_transf_1; cl08282 205922012318 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 205922012319 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 205922012320 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 205922012321 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 205922012322 Maf-like protein; Region: Maf; pfam02545 205922012323 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 205922012324 active site 205922012325 dimer interface [polypeptide binding]; other site 205922012326 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 205922012327 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 205922012328 tandem repeat interface [polypeptide binding]; other site 205922012329 oligomer interface [polypeptide binding]; other site 205922012330 active site residues [active] 205922012331 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 205922012332 motif II; other site 205922012333 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 205922012334 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 205922012335 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 205922012336 active site 205922012337 ribonuclease E; Reviewed; Region: rne; PRK10811 205922012338 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 205922012339 homodimer interface [polypeptide binding]; other site 205922012340 oligonucleotide binding site [chemical binding]; other site 205922012341 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 205922012342 Ligand binding site; other site 205922012343 metal-binding site 205922012344 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 205922012345 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 205922012346 XdhC Rossmann domain; Region: XdhC_C; pfam13478 205922012347 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 205922012348 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922012349 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 205922012350 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922012351 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 205922012352 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 205922012353 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 205922012354 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 205922012355 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 205922012356 FAD binding domain; Region: FAD_binding_4; pfam01565 205922012357 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 205922012358 Low molecular weight phosphatase family; Region: LMWPc; cd00115 205922012359 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 205922012360 active site 205922012361 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 205922012362 Ligand binding site; other site 205922012363 oligomer interface; other site 205922012364 Trm112p-like protein; Region: Trm112p; cl01066 205922012365 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 205922012366 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 205922012367 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205922012368 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922012369 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 205922012370 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 205922012371 Competence protein; Region: Competence; cl00471 205922012372 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922012373 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 205922012374 ABC-2 type transporter; Region: ABC2_membrane; cl11417 205922012375 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 205922012376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922012377 Walker A/P-loop; other site 205922012378 ATP binding site [chemical binding]; other site 205922012379 Q-loop/lid; other site 205922012380 ABC transporter signature motif; other site 205922012381 Walker B; other site 205922012382 D-loop; other site 205922012383 H-loop/switch region; other site 205922012384 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922012385 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 205922012386 putative C-terminal domain interface [polypeptide binding]; other site 205922012387 putative GSH binding site (G-site) [chemical binding]; other site 205922012388 putative dimer interface [polypeptide binding]; other site 205922012389 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 205922012390 putative N-terminal domain interface [polypeptide binding]; other site 205922012391 putative dimer interface [polypeptide binding]; other site 205922012392 putative substrate binding pocket (H-site) [chemical binding]; other site 205922012393 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 205922012394 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 205922012395 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 205922012396 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 205922012397 active site 205922012398 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 205922012399 transcriptional activator TtdR; Provisional; Region: PRK09801 205922012400 Helix-turn-helix domains; Region: HTH; cl00088 205922012401 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 205922012402 putative effector binding pocket; other site 205922012403 dimerization interface [polypeptide binding]; other site 205922012404 alanine-tRNA ligase; Region: PLN02961 205922012405 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 205922012406 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922012407 LysE type translocator; Region: LysE; cl00565 205922012408 hypothetical protein; Provisional; Region: PRK06156 205922012409 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 205922012410 active site 205922012411 metal binding site [ion binding]; metal-binding site 205922012412 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 205922012413 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 205922012414 dimerization interface [polypeptide binding]; other site 205922012415 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922012416 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922012417 dimer interface [polypeptide binding]; other site 205922012418 putative CheW interface [polypeptide binding]; other site 205922012419 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 205922012420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922012421 DNA-binding site [nucleotide binding]; DNA binding site 205922012422 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 205922012423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012424 homodimer interface [polypeptide binding]; other site 205922012425 catalytic residue [active] 205922012426 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 205922012427 classical (c) SDRs; Region: SDR_c; cd05233 205922012428 NAD(P) binding site [chemical binding]; other site 205922012429 active site 205922012430 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 205922012431 Prostaglandin dehydrogenases; Region: PGDH; cd05288 205922012432 NAD(P) binding site [chemical binding]; other site 205922012433 substrate binding site [chemical binding]; other site 205922012434 dimer interface [polypeptide binding]; other site 205922012435 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 205922012436 active site 205922012437 dimer interface [polypeptide binding]; other site 205922012438 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922012439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012440 active site 205922012441 phosphorylation site [posttranslational modification] 205922012442 intermolecular recognition site; other site 205922012443 dimerization interface [polypeptide binding]; other site 205922012444 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 205922012445 DNA binding site [nucleotide binding] 205922012446 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 205922012447 dimerization interface [polypeptide binding]; other site 205922012448 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922012449 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012450 ATP binding site [chemical binding]; other site 205922012451 Mg2+ binding site [ion binding]; other site 205922012452 G-X-G motif; other site 205922012453 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 205922012454 Ca2+ binding site [ion binding]; other site 205922012455 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 205922012456 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922012457 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922012458 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 205922012459 CoenzymeA binding site [chemical binding]; other site 205922012460 subunit interaction site [polypeptide binding]; other site 205922012461 PHB binding site; other site 205922012462 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 205922012463 AMP-binding enzyme; Region: AMP-binding; cl15778 205922012464 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 205922012465 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 205922012466 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 205922012467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012468 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 205922012469 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 205922012470 N-terminal plug; other site 205922012471 ligand-binding site [chemical binding]; other site 205922012472 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 205922012473 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 205922012474 dimerization interface [polypeptide binding]; other site 205922012475 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 205922012476 dimer interface [polypeptide binding]; other site 205922012477 phosphorylation site [posttranslational modification] 205922012478 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012479 ATP binding site [chemical binding]; other site 205922012480 Mg2+ binding site [ion binding]; other site 205922012481 G-X-G motif; other site 205922012482 Response regulator receiver domain; Region: Response_reg; pfam00072 205922012483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012484 active site 205922012485 phosphorylation site [posttranslational modification] 205922012486 intermolecular recognition site; other site 205922012487 dimerization interface [polypeptide binding]; other site 205922012488 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 205922012489 active site 1 [active] 205922012490 dimer interface [polypeptide binding]; other site 205922012491 active site 2 [active] 205922012492 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 205922012493 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 205922012494 dimer interface [polypeptide binding]; other site 205922012495 active site 205922012496 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 205922012497 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 205922012498 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 205922012499 homodimer interface [polypeptide binding]; other site 205922012500 metal binding site [ion binding]; metal-binding site 205922012501 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 205922012502 homodimer interface [polypeptide binding]; other site 205922012503 active site 205922012504 putative chemical substrate binding site [chemical binding]; other site 205922012505 metal binding site [ion binding]; metal-binding site 205922012506 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 205922012507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922012508 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 205922012509 synthetase active site [active] 205922012510 NTP binding site [chemical binding]; other site 205922012511 metal binding site [ion binding]; metal-binding site 205922012512 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 205922012513 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 205922012514 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 205922012515 TRAM domain; Region: TRAM; cl01282 205922012516 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 205922012517 S-adenosylmethionine binding site [chemical binding]; other site 205922012518 cysteine synthase B; Region: cysM; TIGR01138 205922012519 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 205922012520 dimer interface [polypeptide binding]; other site 205922012521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012522 catalytic residue [active] 205922012523 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 205922012524 dimerization interface [polypeptide binding]; other site 205922012525 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 205922012526 dimer interface [polypeptide binding]; other site 205922012527 phosphorylation site [posttranslational modification] 205922012528 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012529 ATP binding site [chemical binding]; other site 205922012530 Mg2+ binding site [ion binding]; other site 205922012531 G-X-G motif; other site 205922012532 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922012533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012534 active site 205922012535 phosphorylation site [posttranslational modification] 205922012536 intermolecular recognition site; other site 205922012537 dimerization interface [polypeptide binding]; other site 205922012538 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 205922012539 DNA binding site [nucleotide binding] 205922012540 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 205922012541 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 205922012542 dimerization interface [polypeptide binding]; other site 205922012543 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 205922012544 dimer interface [polypeptide binding]; other site 205922012545 phosphorylation site [posttranslational modification] 205922012546 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012547 ATP binding site [chemical binding]; other site 205922012548 Mg2+ binding site [ion binding]; other site 205922012549 G-X-G motif; other site 205922012550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012551 active site 205922012552 phosphorylation site [posttranslational modification] 205922012553 intermolecular recognition site; other site 205922012554 dimerization interface [polypeptide binding]; other site 205922012555 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 205922012556 putative binding surface; other site 205922012557 active site 205922012558 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 205922012559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012560 META domain; Region: META; cl01245 205922012561 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 205922012562 catalytic residues [active] 205922012563 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 205922012564 ArsC family; Region: ArsC; pfam03960 205922012565 catalytic residues [active] 205922012566 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922012567 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 205922012568 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 205922012569 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 205922012570 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 205922012571 Ligand Binding Site [chemical binding]; other site 205922012572 Yip1 domain; Region: Yip1; cl12048 205922012573 hypothetical protein; Provisional; Region: PRK04860 205922012574 SprT homologues; Region: SprT; cl01182 205922012575 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 205922012576 CoA-transferase family III; Region: CoA_transf_3; pfam02515 205922012577 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922012578 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 205922012579 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922012580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922012581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922012582 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 205922012583 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922012584 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012585 ATP binding site [chemical binding]; other site 205922012586 Mg2+ binding site [ion binding]; other site 205922012587 G-X-G motif; other site 205922012588 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 205922012589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012590 active site 205922012591 phosphorylation site [posttranslational modification] 205922012592 intermolecular recognition site; other site 205922012593 dimerization interface [polypeptide binding]; other site 205922012594 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 205922012595 DNA binding site [nucleotide binding] 205922012596 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922012597 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 205922012598 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922012599 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922012600 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 205922012601 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 205922012602 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 205922012603 dimerization interface [polypeptide binding]; other site 205922012604 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 205922012605 dimer interface [polypeptide binding]; other site 205922012606 phosphorylation site [posttranslational modification] 205922012607 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012608 ATP binding site [chemical binding]; other site 205922012609 Mg2+ binding site [ion binding]; other site 205922012610 G-X-G motif; other site 205922012611 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 205922012612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012613 active site 205922012614 phosphorylation site [posttranslational modification] 205922012615 intermolecular recognition site; other site 205922012616 dimerization interface [polypeptide binding]; other site 205922012617 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 205922012618 DNA binding site [nucleotide binding] 205922012619 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 205922012620 ATP cone domain; Region: ATP-cone; pfam03477 205922012621 ATP cone domain; Region: ATP-cone; pfam03477 205922012622 Class I ribonucleotide reductase; Region: RNR_I; cd01679 205922012623 active site 205922012624 dimer interface [polypeptide binding]; other site 205922012625 catalytic residues [active] 205922012626 effector binding site; other site 205922012627 R2 peptide binding site; other site 205922012628 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922012629 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922012630 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922012631 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922012632 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 205922012633 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 205922012634 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 205922012635 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 205922012636 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 205922012637 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 205922012638 FlgD Ig-like domain; Region: FlgD_ig; cl15790 205922012639 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 205922012640 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 205922012641 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 205922012642 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 205922012643 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 205922012644 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 205922012645 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 205922012646 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922012647 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 205922012648 Response regulator receiver domain; Region: Response_reg; pfam00072 205922012649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012650 active site 205922012651 phosphorylation site [posttranslational modification] 205922012652 intermolecular recognition site; other site 205922012653 dimerization interface [polypeptide binding]; other site 205922012654 SAF-like; Region: SAF_2; pfam13144 205922012655 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 205922012656 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 205922012657 FlgN protein; Region: FlgN; cl09176 205922012658 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 205922012659 PilZ domain; Region: PilZ; cl01260 205922012660 putative MFS family transporter protein; Provisional; Region: PRK03633 205922012661 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922012662 putative substrate translocation pore; other site 205922012663 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922012664 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922012665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922012666 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922012667 ATP binding site [chemical binding]; other site 205922012668 Mg2+ binding site [ion binding]; other site 205922012669 G-X-G motif; other site 205922012670 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 205922012671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922012672 active site 205922012673 phosphorylation site [posttranslational modification] 205922012674 intermolecular recognition site; other site 205922012675 dimerization interface [polypeptide binding]; other site 205922012676 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 205922012677 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 205922012678 binding surface 205922012679 TPR motif; other site 205922012680 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 205922012681 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 205922012682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012683 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922012684 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 205922012685 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 205922012686 Cytochrome c; Region: Cytochrom_C; cl11414 205922012687 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922012688 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 205922012689 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 205922012690 dimerization interface [polypeptide binding]; other site 205922012691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922012692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922012693 dimer interface [polypeptide binding]; other site 205922012694 putative CheW interface [polypeptide binding]; other site 205922012695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922012696 active site 205922012697 Arc-like DNA binding domain; Region: Arc; pfam03869 205922012698 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 205922012699 MgtE intracellular N domain; Region: MgtE_N; cl15244 205922012700 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 205922012701 Divalent cation transporter; Region: MgtE; cl00786 205922012702 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 205922012703 Global regulator protein family; Region: CsrA; cl00670 205922012704 aspartate kinase; Reviewed; Region: PRK06635 205922012705 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 205922012706 putative nucleotide binding site [chemical binding]; other site 205922012707 putative catalytic residues [active] 205922012708 putative Mg ion binding site [ion binding]; other site 205922012709 putative aspartate binding site [chemical binding]; other site 205922012710 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 205922012711 putative allosteric regulatory site; other site 205922012712 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 205922012713 putative allosteric regulatory residue; other site 205922012714 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 205922012715 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 205922012716 motif 1; other site 205922012717 active site 205922012718 motif 2; other site 205922012719 motif 3; other site 205922012720 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 205922012721 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 205922012722 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 205922012723 tetramer interface [polypeptide binding]; other site 205922012724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012725 catalytic residue [active] 205922012726 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 205922012727 active site 205922012728 homopentamer interface [polypeptide binding]; other site 205922012729 dimer interface [polypeptide binding]; other site 205922012730 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 205922012731 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 205922012732 active site 205922012733 Zn binding site [ion binding]; other site 205922012734 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 205922012735 Succinylarginine dihydrolase; Region: AstB; cl01511 205922012736 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922012737 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 205922012738 NAD(P) binding site [chemical binding]; other site 205922012739 catalytic residues [active] 205922012740 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 205922012741 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 205922012742 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 205922012743 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 205922012744 inhibitor-cofactor binding pocket; inhibition site 205922012745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012746 catalytic residue [active] 205922012747 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 205922012748 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 205922012749 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 205922012750 Leucine rich repeat; Region: LRR_8; pfam13855 205922012751 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 205922012752 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 205922012753 Substrate binding site [chemical binding]; other site 205922012754 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 205922012755 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922012756 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 205922012757 conserved cys residue [active] 205922012758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922012759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922012760 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 205922012761 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922012762 Walker A/P-loop; other site 205922012763 ATP binding site [chemical binding]; other site 205922012764 Q-loop/lid; other site 205922012765 ABC transporter signature motif; other site 205922012766 Walker B; other site 205922012767 D-loop; other site 205922012768 H-loop/switch region; other site 205922012769 Predicted deacylase [General function prediction only]; Region: COG3608 205922012770 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 205922012771 active site 205922012772 Zn binding site [ion binding]; other site 205922012773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922012774 dimer interface [polypeptide binding]; other site 205922012775 conserved gate region; other site 205922012776 putative PBP binding loops; other site 205922012777 ABC-ATPase subunit interface; other site 205922012778 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922012779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922012780 dimer interface [polypeptide binding]; other site 205922012781 conserved gate region; other site 205922012782 putative PBP binding loops; other site 205922012783 ABC-ATPase subunit interface; other site 205922012784 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 205922012785 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 205922012786 substrate binding pocket [chemical binding]; other site 205922012787 membrane-bound complex binding site; other site 205922012788 hinge residues; other site 205922012789 acetyl-CoA synthetase; Provisional; Region: PRK00174 205922012790 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 205922012791 AMP-binding enzyme; Region: AMP-binding; cl15778 205922012792 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922012793 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922012794 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 205922012795 dimer interface [polypeptide binding]; other site 205922012796 putative radical transfer pathway; other site 205922012797 diiron center [ion binding]; other site 205922012798 tyrosyl radical; other site 205922012799 BRO family, N-terminal domain; Region: Bro-N; cl10591 205922012800 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 205922012801 active site 205922012802 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 205922012803 Cupin domain; Region: Cupin_2; cl09118 205922012804 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922012805 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922012806 amidase; Provisional; Region: PRK08137 205922012807 Amidase; Region: Amidase; cl11426 205922012808 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922012809 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922012810 Helix-turn-helix domains; Region: HTH; cl00088 205922012811 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 205922012812 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 205922012813 MASE2 domain; Region: MASE2; pfam05230 205922012814 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922012815 metal binding site [ion binding]; metal-binding site 205922012816 active site 205922012817 I-site; other site 205922012818 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 205922012819 PAS domain; Region: PAS_9; pfam13426 205922012820 putative active site [active] 205922012821 heme pocket [chemical binding]; other site 205922012822 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 205922012823 PAS domain; Region: PAS_9; pfam13426 205922012824 putative active site [active] 205922012825 heme pocket [chemical binding]; other site 205922012826 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922012827 dimer interface [polypeptide binding]; other site 205922012828 putative CheW interface [polypeptide binding]; other site 205922012829 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 205922012830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922012831 Helix-turn-helix domains; Region: HTH; cl00088 205922012832 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 205922012833 dimerization interface [polypeptide binding]; other site 205922012834 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 205922012835 conserved cys residue [active] 205922012836 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922012837 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 205922012838 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 205922012839 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 205922012840 active site 205922012841 catalytic site [active] 205922012842 metal binding site [ion binding]; metal-binding site 205922012843 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 205922012844 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922012845 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922012846 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922012847 dimer interface [polypeptide binding]; other site 205922012848 putative CheW interface [polypeptide binding]; other site 205922012849 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 205922012850 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 205922012851 Phosphate transporter family; Region: PHO4; cl00396 205922012852 Phosphate transporter family; Region: PHO4; cl00396 205922012853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922012854 Helix-turn-helix domains; Region: HTH; cl00088 205922012855 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 205922012856 putative effector binding pocket; other site 205922012857 putative dimerization interface [polypeptide binding]; other site 205922012858 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205922012859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922012860 NAD(P) binding site [chemical binding]; other site 205922012861 active site 205922012862 Predicted membrane protein [Function unknown]; Region: COG4125 205922012863 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 205922012864 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 205922012865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922012866 Helix-turn-helix domains; Region: HTH; cl00088 205922012867 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 205922012868 dimerization interface [polypeptide binding]; other site 205922012869 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922012870 Helix-turn-helix domains; Region: HTH; cl00088 205922012871 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 205922012872 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 205922012873 classical (c) SDRs; Region: SDR_c; cd05233 205922012874 NAD(P) binding site [chemical binding]; other site 205922012875 active site 205922012876 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 205922012877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922012878 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922012879 YCII-related domain; Region: YCII; cl00999 205922012880 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 205922012881 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922012882 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205922012883 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922012884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922012885 Coenzyme A binding pocket [chemical binding]; other site 205922012886 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 205922012887 LysE type translocator; Region: LysE; cl00565 205922012888 aminotransferase; Validated; Region: PRK08175 205922012889 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 205922012890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922012891 homodimer interface [polypeptide binding]; other site 205922012892 catalytic residue [active] 205922012893 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 205922012894 GntP family permease; Region: GntP_permease; pfam02447 205922012895 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 205922012896 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 205922012897 ATP-binding site [chemical binding]; other site 205922012898 Gluconate-6-phosphate binding site [chemical binding]; other site 205922012899 Transcriptional regulators [Transcription]; Region: PurR; COG1609 205922012900 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205922012901 DNA binding site [nucleotide binding] 205922012902 domain linker motif; other site 205922012903 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 205922012904 putative ligand binding site [chemical binding]; other site 205922012905 putative dimerization interface [polypeptide binding]; other site 205922012906 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922012907 Helix-turn-helix domains; Region: HTH; cl00088 205922012908 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 205922012909 dimerization interface [polypeptide binding]; other site 205922012910 Predicted membrane protein [Function unknown]; Region: COG4125 205922012911 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 205922012912 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 205922012913 benzoate transport; Region: 2A0115; TIGR00895 205922012914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922012915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922012916 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 205922012917 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 205922012918 PAS domain; Region: PAS_9; pfam13426 205922012919 putative active site [active] 205922012920 heme pocket [chemical binding]; other site 205922012921 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 205922012922 PAS domain; Region: PAS_9; pfam13426 205922012923 putative active site [active] 205922012924 heme pocket [chemical binding]; other site 205922012925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922012926 dimer interface [polypeptide binding]; other site 205922012927 putative CheW interface [polypeptide binding]; other site 205922012928 NMT1-like family; Region: NMT1_2; cl15260 205922012929 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 205922012930 RNA polymerase sigma factor; Provisional; Region: PRK12525 205922012931 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 205922012932 DNA binding residues [nucleotide binding] 205922012933 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 205922012934 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 205922012935 putative di-iron ligands [ion binding]; other site 205922012936 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922012937 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 205922012938 active site 205922012939 catalytic residues [active] 205922012940 metal binding site [ion binding]; metal-binding site 205922012941 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 205922012942 CsbD-like; Region: CsbD; cl15799 205922012943 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 205922012944 AMP-binding enzyme; Region: AMP-binding; cl15778 205922012945 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922012946 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 205922012947 AMP-binding enzyme; Region: AMP-binding; cl15778 205922012948 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922012949 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 205922012950 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922012951 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922012952 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922012953 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 205922012954 dimer interaction site [polypeptide binding]; other site 205922012955 substrate-binding tunnel; other site 205922012956 active site 205922012957 catalytic site [active] 205922012958 substrate binding site [chemical binding]; other site 205922012959 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 205922012960 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 205922012961 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 205922012962 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 205922012963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922012964 catalytic residue [active] 205922012965 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 205922012966 putative active site [active] 205922012967 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 205922012968 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 205922012969 active site 205922012970 intersubunit interface [polypeptide binding]; other site 205922012971 catalytic residue [active] 205922012972 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 205922012973 putative active site [active] 205922012974 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 205922012975 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 205922012976 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 205922012977 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 205922012978 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 205922012979 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 205922012980 putative active site [active] 205922012981 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 205922012982 active site 205922012983 phosphate binding residues; other site 205922012984 catalytic residues [active] 205922012985 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 205922012986 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 205922012987 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 205922012988 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 205922012989 Walker A/P-loop; other site 205922012990 ATP binding site [chemical binding]; other site 205922012991 Q-loop/lid; other site 205922012992 ABC transporter signature motif; other site 205922012993 Walker B; other site 205922012994 D-loop; other site 205922012995 H-loop/switch region; other site 205922012996 TOBE domain; Region: TOBE_2; cl01440 205922012997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922012998 dimer interface [polypeptide binding]; other site 205922012999 conserved gate region; other site 205922013000 putative PBP binding loops; other site 205922013001 ABC-ATPase subunit interface; other site 205922013002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922013003 dimer interface [polypeptide binding]; other site 205922013004 conserved gate region; other site 205922013005 putative PBP binding loops; other site 205922013006 ABC-ATPase subunit interface; other site 205922013007 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 205922013008 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 205922013009 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 205922013010 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 205922013011 dimerization interface [polypeptide binding]; other site 205922013012 putative active cleft [active] 205922013013 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922013014 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 205922013015 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013016 ATP binding site [chemical binding]; other site 205922013017 Mg2+ binding site [ion binding]; other site 205922013018 G-X-G motif; other site 205922013019 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922013020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013021 active site 205922013022 phosphorylation site [posttranslational modification] 205922013023 intermolecular recognition site; other site 205922013024 dimerization interface [polypeptide binding]; other site 205922013025 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 205922013026 DNA binding site [nucleotide binding] 205922013027 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 205922013028 glucokinase, proteobacterial type; Region: glk; TIGR00749 205922013029 Dehydratase family; Region: ILVD_EDD; cl00340 205922013030 6-phosphogluconate dehydratase; Region: edd; TIGR01196 205922013031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013032 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 205922013033 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 205922013034 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 205922013035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922013036 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 205922013037 DNA binding residues [nucleotide binding] 205922013038 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 205922013039 FecR protein; Region: FecR; pfam04773 205922013040 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922013041 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 205922013042 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 205922013043 N-terminal plug; other site 205922013044 ligand-binding site [chemical binding]; other site 205922013045 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 205922013046 heme binding pocket [chemical binding]; other site 205922013047 heme ligand [chemical binding]; other site 205922013048 Protein of unknown function (DUF454); Region: DUF454; cl01063 205922013049 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 205922013050 dimerization interface [polypeptide binding]; other site 205922013051 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922013052 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922013053 dimer interface [polypeptide binding]; other site 205922013054 putative CheW interface [polypeptide binding]; other site 205922013055 CoA-transferase family III; Region: CoA_transf_3; pfam02515 205922013056 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 205922013057 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 205922013058 Amidinotransferase; Region: Amidinotransf; cl12043 205922013059 ornithine carbamoyltransferase; Validated; Region: PRK02102 205922013060 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 205922013061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013062 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 205922013063 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 205922013064 putative substrate binding site [chemical binding]; other site 205922013065 nucleotide binding site [chemical binding]; other site 205922013066 nucleotide binding site [chemical binding]; other site 205922013067 homodimer interface [polypeptide binding]; other site 205922013068 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 205922013069 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 205922013070 putative aromatic amino acid binding site; other site 205922013071 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 205922013072 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 205922013073 Walker A motif; other site 205922013074 ATP binding site [chemical binding]; other site 205922013075 Walker B motif; other site 205922013076 arginine finger; other site 205922013077 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 205922013078 lipoyl attachment site [posttranslational modification]; other site 205922013079 glycine dehydrogenase; Provisional; Region: PRK05367 205922013080 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 205922013081 tetramer interface [polypeptide binding]; other site 205922013082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922013083 catalytic residue [active] 205922013084 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 205922013085 tetramer interface [polypeptide binding]; other site 205922013086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922013087 catalytic residue [active] 205922013088 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 205922013089 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 205922013090 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 205922013091 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 205922013092 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 205922013093 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 205922013094 DNA-binding site [nucleotide binding]; DNA binding site 205922013095 RNA-binding motif; other site 205922013096 RDD family; Region: RDD; cl00746 205922013097 Quinolinate synthetase A protein; Region: NadA; cl00420 205922013098 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 205922013099 Ligand Binding Site [chemical binding]; other site 205922013100 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 205922013101 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 205922013102 FeS/SAM binding site; other site 205922013103 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 205922013104 Tetratricopeptide repeat; Region: TPR_6; pfam13174 205922013105 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922013106 ligand binding site [chemical binding]; other site 205922013107 translocation protein TolB; Provisional; Region: tolB; PRK00178 205922013108 TolB amino-terminal domain; Region: TolB_N; cl00639 205922013109 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 205922013110 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 205922013111 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 205922013112 TolA protein; Region: tolA_full; TIGR02794 205922013113 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 205922013114 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922013115 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205922013116 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922013117 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 205922013118 active site 205922013119 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 205922013120 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 205922013121 Walker A motif; other site 205922013122 ATP binding site [chemical binding]; other site 205922013123 Walker B motif; other site 205922013124 arginine finger; other site 205922013125 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 205922013126 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 205922013127 RuvA N terminal domain; Region: RuvA_N; pfam01330 205922013128 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 205922013129 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 205922013130 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 205922013131 active site 205922013132 putative DNA-binding cleft [nucleotide binding]; other site 205922013133 dimer interface [polypeptide binding]; other site 205922013134 Transcriptional regulator; Region: Transcrip_reg; cl00361 205922013135 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 205922013136 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 205922013137 dimer interface [polypeptide binding]; other site 205922013138 anticodon binding site; other site 205922013139 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 205922013140 homodimer interface [polypeptide binding]; other site 205922013141 motif 1; other site 205922013142 active site 205922013143 motif 2; other site 205922013144 GAD domain; Region: GAD; pfam02938 205922013145 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 205922013146 active site 205922013147 motif 3; other site 205922013148 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 205922013149 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 205922013150 Ribbon-helix-helix domain; Region: RHH_4; cl01775 205922013151 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 205922013152 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 205922013153 dimerization interface [polypeptide binding]; other site 205922013154 DPS ferroxidase diiron center [ion binding]; other site 205922013155 ion pore; other site 205922013156 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 205922013157 DNA-binding site [nucleotide binding]; DNA binding site 205922013158 RNA-binding motif; other site 205922013159 SlyX; Region: SlyX; cl01090 205922013160 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 205922013161 outer membrane porin, OprD family; Region: OprD; pfam03573 205922013162 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922013163 Protein of unknown function (DUF520); Region: DUF520; cl00723 205922013164 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 205922013165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013166 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 205922013167 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 205922013168 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922013169 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 205922013170 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 205922013171 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 205922013172 dimer interface [polypeptide binding]; other site 205922013173 phosphorylation site [posttranslational modification] 205922013174 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013175 ATP binding site [chemical binding]; other site 205922013176 Mg2+ binding site [ion binding]; other site 205922013177 G-X-G motif; other site 205922013178 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 205922013179 hypothetical protein; Provisional; Region: PRK08999 205922013180 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 205922013181 active site 205922013182 8-oxo-dGMP binding site [chemical binding]; other site 205922013183 nudix motif; other site 205922013184 metal binding site [ion binding]; metal-binding site 205922013185 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 205922013186 thiamine phosphate binding site [chemical binding]; other site 205922013187 active site 205922013188 pyrophosphate binding site [ion binding]; other site 205922013189 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 205922013190 putative C-terminal domain interface [polypeptide binding]; other site 205922013191 putative GSH binding site (G-site) [chemical binding]; other site 205922013192 putative dimer interface [polypeptide binding]; other site 205922013193 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 205922013194 putative substrate binding pocket (H-site) [chemical binding]; other site 205922013195 putative N-terminal domain interface [polypeptide binding]; other site 205922013196 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 205922013197 heterotetramer interface [polypeptide binding]; other site 205922013198 active site pocket [active] 205922013199 cleavage site 205922013200 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 205922013201 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 205922013202 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 205922013203 nucleotide binding region [chemical binding]; other site 205922013204 ATP-binding site [chemical binding]; other site 205922013205 SEC-C motif; Region: SEC-C; pfam02810 205922013206 Protein of unknown function (DUF721); Region: DUF721; cl02324 205922013207 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 205922013208 Cache domain; Region: Cache_1; pfam02743 205922013209 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 205922013210 dimerization interface [polypeptide binding]; other site 205922013211 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922013212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922013213 dimer interface [polypeptide binding]; other site 205922013214 putative CheW interface [polypeptide binding]; other site 205922013215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922013216 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 205922013217 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 205922013218 Predicted deacetylase [General function prediction only]; Region: COG3233 205922013219 putative active site [active] 205922013220 putative Zn binding site [ion binding]; other site 205922013221 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 205922013222 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 205922013223 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 205922013224 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 205922013225 putative active site [active] 205922013226 putative substrate binding site [chemical binding]; other site 205922013227 putative cosubstrate binding site; other site 205922013228 catalytic site [active] 205922013229 exonuclease I; Provisional; Region: sbcB; PRK11779 205922013230 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 205922013231 active site 205922013232 catalytic site [active] 205922013233 substrate binding site [chemical binding]; other site 205922013234 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 205922013235 RDD family; Region: RDD; cl00746 205922013236 Integral membrane protein DUF95; Region: DUF95; cl00572 205922013237 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 205922013238 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 205922013239 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 205922013240 Walker A motif; other site 205922013241 ATP binding site [chemical binding]; other site 205922013242 Walker B motif; other site 205922013243 arginine finger; other site 205922013244 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 205922013245 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922013246 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922013247 PilZ domain; Region: PilZ; cl01260 205922013248 pyruvate kinase; Provisional; Region: PRK05826 205922013249 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 205922013250 domain interfaces; other site 205922013251 active site 205922013252 enoyl-CoA hydratase; Provisional; Region: PRK06688 205922013253 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 205922013254 substrate binding site [chemical binding]; other site 205922013255 oxyanion hole (OAH) forming residues; other site 205922013256 trimer interface [polypeptide binding]; other site 205922013257 hypothetical protein; Provisional; Region: PRK05713 205922013258 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 205922013259 catalytic loop [active] 205922013260 iron binding site [ion binding]; other site 205922013261 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 205922013262 FAD binding pocket [chemical binding]; other site 205922013263 FAD binding motif [chemical binding]; other site 205922013264 phosphate binding motif [ion binding]; other site 205922013265 beta-alpha-beta structure motif; other site 205922013266 NAD binding pocket [chemical binding]; other site 205922013267 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 205922013268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922013269 metal binding site [ion binding]; metal-binding site 205922013270 active site 205922013271 I-site; other site 205922013272 putative fumarate hydratase; Provisional; Region: PRK15392 205922013273 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 205922013274 Fumarase C-terminus; Region: Fumerase_C; cl00795 205922013275 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 205922013276 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 205922013277 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 205922013278 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922013279 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922013280 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922013281 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922013282 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 205922013283 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 205922013284 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 205922013285 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 205922013286 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 205922013287 dimer interface [polypeptide binding]; other site 205922013288 phosphorylation site [posttranslational modification] 205922013289 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013290 ATP binding site [chemical binding]; other site 205922013291 Mg2+ binding site [ion binding]; other site 205922013292 G-X-G motif; other site 205922013293 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922013294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013295 active site 205922013296 phosphorylation site [posttranslational modification] 205922013297 intermolecular recognition site; other site 205922013298 dimerization interface [polypeptide binding]; other site 205922013299 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 205922013300 Walker A motif; other site 205922013301 ATP binding site [chemical binding]; other site 205922013302 Walker B motif; other site 205922013303 arginine finger; other site 205922013304 Helix-turn-helix domains; Region: HTH; cl00088 205922013305 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 205922013306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922013307 putative substrate translocation pore; other site 205922013308 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 205922013309 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 205922013310 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 205922013311 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 205922013312 Flavin Reductases; Region: FlaRed; cl00801 205922013313 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 205922013314 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 205922013315 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 205922013316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922013317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922013318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922013319 Walker A/P-loop; other site 205922013320 ATP binding site [chemical binding]; other site 205922013321 Q-loop/lid; other site 205922013322 ABC transporter signature motif; other site 205922013323 Walker B; other site 205922013324 D-loop; other site 205922013325 H-loop/switch region; other site 205922013326 TOBE domain; Region: TOBE_2; cl01440 205922013327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 205922013328 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922013329 dimer interface [polypeptide binding]; other site 205922013330 conserved gate region; other site 205922013331 putative PBP binding loops; other site 205922013332 ABC-ATPase subunit interface; other site 205922013333 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922013334 dimer interface [polypeptide binding]; other site 205922013335 putative PBP binding loops; other site 205922013336 ABC-ATPase subunit interface; other site 205922013337 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 205922013338 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 205922013339 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922013340 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 205922013341 NAD(P) binding site [chemical binding]; other site 205922013342 catalytic residues [active] 205922013343 catalytic residues [active] 205922013344 hypothetical protein; Provisional; Region: PRK07524 205922013345 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 205922013346 PYR/PP interface [polypeptide binding]; other site 205922013347 dimer interface [polypeptide binding]; other site 205922013348 TPP binding site [chemical binding]; other site 205922013349 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 205922013350 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 205922013351 TPP-binding site [chemical binding]; other site 205922013352 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922013353 Helix-turn-helix domains; Region: HTH; cl00088 205922013354 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 205922013355 dimerization interface [polypeptide binding]; other site 205922013356 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 205922013357 NADH(P)-binding; Region: NAD_binding_10; pfam13460 205922013358 NAD binding site [chemical binding]; other site 205922013359 putative active site [active] 205922013360 substrate binding site [chemical binding]; other site 205922013361 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922013362 transcriptional regulator; Provisional; Region: PRK10632 205922013363 Helix-turn-helix domains; Region: HTH; cl00088 205922013364 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 205922013365 putative effector binding pocket; other site 205922013366 dimerization interface [polypeptide binding]; other site 205922013367 Cupin domain; Region: Cupin_2; cl09118 205922013368 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 205922013369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922013370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013371 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 205922013372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013373 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922013374 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922013375 putative substrate translocation pore; other site 205922013376 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922013377 Cache domain; Region: Cache_2; cl07034 205922013378 Uncharacterized protein family (UPF0233); Region: UPF0233; cl11506 205922013379 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205922013380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013381 NAD(P) binding site [chemical binding]; other site 205922013382 active site 205922013383 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 205922013384 Helix-turn-helix domains; Region: HTH; cl00088 205922013385 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 205922013386 dimerization interface [polypeptide binding]; other site 205922013387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 205922013388 ACT domain; Region: ACT_3; pfam10000 205922013389 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 205922013390 LysE type translocator; Region: LysE; cl00565 205922013391 superoxide dismutase; Provisional; Region: PRK10543 205922013392 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 205922013393 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 205922013394 biofilm formation regulator HmsP; Provisional; Region: PRK11829 205922013395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922013396 metal binding site [ion binding]; metal-binding site 205922013397 active site 205922013398 I-site; other site 205922013399 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 205922013400 Imelysin; Region: Peptidase_M75; cl09159 205922013401 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 205922013402 Imelysin; Region: Peptidase_M75; cl09159 205922013403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 205922013404 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205922013405 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922013406 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922013407 multidrug efflux protein; Reviewed; Region: PRK09579 205922013408 Protein export membrane protein; Region: SecD_SecF; cl14618 205922013409 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922013410 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 205922013411 S-adenosylmethionine binding site [chemical binding]; other site 205922013412 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922013413 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 205922013415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013416 active site 205922013417 phosphorylation site [posttranslational modification] 205922013418 intermolecular recognition site; other site 205922013419 dimerization interface [polypeptide binding]; other site 205922013420 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 205922013421 DNA binding site [nucleotide binding] 205922013422 Sulfatase; Region: Sulfatase; cl10460 205922013423 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 205922013424 active site 205922013425 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 205922013426 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 205922013427 ring oligomerisation interface [polypeptide binding]; other site 205922013428 ATP/Mg binding site [chemical binding]; other site 205922013429 stacking interactions; other site 205922013430 hinge regions; other site 205922013431 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 205922013432 oligomerisation interface [polypeptide binding]; other site 205922013433 mobile loop; other site 205922013434 roof hairpin; other site 205922013435 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 205922013436 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 205922013437 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205922013438 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 205922013439 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 205922013440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013441 NAD(P) binding site [chemical binding]; other site 205922013442 active site 205922013443 antiporter inner membrane protein; Provisional; Region: PRK11670 205922013444 Domain of unknown function DUF59; Region: DUF59; cl00941 205922013445 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 205922013446 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 205922013447 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 205922013448 active site 205922013449 HIGH motif; other site 205922013450 KMSKS motif; other site 205922013451 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 205922013452 tRNA binding surface [nucleotide binding]; other site 205922013453 anticodon binding site; other site 205922013454 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 205922013455 dimer interface [polypeptide binding]; other site 205922013456 putative tRNA-binding site [nucleotide binding]; other site 205922013457 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 205922013458 electron transport complex protein RnfB; Provisional; Region: PRK05113 205922013459 Putative Fe-S cluster; Region: FeS; pfam04060 205922013460 4Fe-4S binding domain; Region: Fer4; cl02805 205922013461 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 205922013462 FMN-binding domain; Region: FMN_bind; cl01081 205922013463 endonuclease III; Provisional; Region: PRK10702 205922013464 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 205922013465 minor groove reading motif; other site 205922013466 helix-hairpin-helix signature motif; other site 205922013467 substrate binding pocket [chemical binding]; other site 205922013468 active site 205922013469 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 205922013470 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922013471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013472 active site 205922013473 phosphorylation site [posttranslational modification] 205922013474 intermolecular recognition site; other site 205922013475 dimerization interface [polypeptide binding]; other site 205922013476 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 205922013477 DNA binding residues [nucleotide binding] 205922013478 dimerization interface [polypeptide binding]; other site 205922013479 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 205922013480 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 205922013481 ANP binding site [chemical binding]; other site 205922013482 Substrate Binding Site II [chemical binding]; other site 205922013483 Substrate Binding Site I [chemical binding]; other site 205922013484 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922013485 ligand binding site [chemical binding]; other site 205922013486 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 205922013487 active site 205922013488 substrate binding pocket [chemical binding]; other site 205922013489 dimer interface [polypeptide binding]; other site 205922013490 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 205922013491 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 205922013492 dimer interface [polypeptide binding]; other site 205922013493 catalytic site [active] 205922013494 putative active site [active] 205922013495 putative substrate binding site [chemical binding]; other site 205922013496 peroxidase; Provisional; Region: PRK15000 205922013497 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 205922013498 dimer interface [polypeptide binding]; other site 205922013499 decamer (pentamer of dimers) interface [polypeptide binding]; other site 205922013500 catalytic triad [active] 205922013501 peroxidatic and resolving cysteines [active] 205922013502 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 205922013503 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 205922013504 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 205922013505 heme binding site [chemical binding]; other site 205922013506 ferroxidase pore; other site 205922013507 ferroxidase diiron center [ion binding]; other site 205922013508 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 205922013509 putative GSH binding site [chemical binding]; other site 205922013510 catalytic residues [active] 205922013511 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 205922013512 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 205922013513 putative [Fe4-S4] binding site [ion binding]; other site 205922013514 putative molybdopterin cofactor binding site [chemical binding]; other site 205922013515 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 205922013516 putative molybdopterin cofactor binding site; other site 205922013517 ornithine carbamoyltransferase; Provisional; Region: PRK00779 205922013518 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 205922013519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922013520 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922013521 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 205922013522 Walker A/P-loop; other site 205922013523 ATP binding site [chemical binding]; other site 205922013524 Q-loop/lid; other site 205922013525 ABC transporter signature motif; other site 205922013526 Walker B; other site 205922013527 D-loop; other site 205922013528 H-loop/switch region; other site 205922013529 TOBE domain; Region: TOBE_2; cl01440 205922013530 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 205922013531 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 205922013532 putative deacylase active site [active] 205922013533 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 205922013534 amphipathic channel; other site 205922013535 Asn-Pro-Ala signature motifs; other site 205922013536 glycerol kinase; Provisional; Region: glpK; PRK00047 205922013537 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 205922013538 N- and C-terminal domain interface [polypeptide binding]; other site 205922013539 active site 205922013540 MgATP binding site [chemical binding]; other site 205922013541 catalytic site [active] 205922013542 metal binding site [ion binding]; metal-binding site 205922013543 glycerol binding site [chemical binding]; other site 205922013544 homotetramer interface [polypeptide binding]; other site 205922013545 homodimer interface [polypeptide binding]; other site 205922013546 protein IIAGlc interface [polypeptide binding]; other site 205922013547 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 205922013548 Helix-turn-helix domains; Region: HTH; cl00088 205922013549 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922013550 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 205922013551 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 205922013552 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 205922013553 substrate binding pocket [chemical binding]; other site 205922013554 membrane-bound complex binding site; other site 205922013555 hinge residues; other site 205922013556 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922013557 dimer interface [polypeptide binding]; other site 205922013558 conserved gate region; other site 205922013559 putative PBP binding loops; other site 205922013560 ABC-ATPase subunit interface; other site 205922013561 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922013562 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922013563 dimer interface [polypeptide binding]; other site 205922013564 conserved gate region; other site 205922013565 putative PBP binding loops; other site 205922013566 ABC-ATPase subunit interface; other site 205922013567 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922013568 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922013569 Walker A/P-loop; other site 205922013570 ATP binding site [chemical binding]; other site 205922013571 Q-loop/lid; other site 205922013572 ABC transporter signature motif; other site 205922013573 Walker B; other site 205922013574 D-loop; other site 205922013575 H-loop/switch region; other site 205922013576 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 205922013577 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 205922013578 dimer interface [polypeptide binding]; other site 205922013579 phosphorylation site [posttranslational modification] 205922013580 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013581 ATP binding site [chemical binding]; other site 205922013582 Mg2+ binding site [ion binding]; other site 205922013583 G-X-G motif; other site 205922013584 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922013585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013586 active site 205922013587 phosphorylation site [posttranslational modification] 205922013588 intermolecular recognition site; other site 205922013589 dimerization interface [polypeptide binding]; other site 205922013590 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 205922013591 Walker A motif; other site 205922013592 ATP binding site [chemical binding]; other site 205922013593 Walker B motif; other site 205922013594 arginine finger; other site 205922013595 Helix-turn-helix domains; Region: HTH; cl00088 205922013596 GlpM protein; Region: GlpM; cl01212 205922013597 short chain dehydrogenase; Validated; Region: PRK05855 205922013598 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 205922013599 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922013600 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 205922013601 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 205922013602 THF binding site; other site 205922013603 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 205922013604 substrate binding site [chemical binding]; other site 205922013605 THF binding site; other site 205922013606 zinc-binding site [ion binding]; other site 205922013607 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 205922013608 Helix-turn-helix domains; Region: HTH; cl00088 205922013609 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 205922013610 putative dimerization interface [polypeptide binding]; other site 205922013611 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 205922013612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922013613 Coenzyme A binding pocket [chemical binding]; other site 205922013614 LysE type translocator; Region: LysE; cl00565 205922013615 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 205922013616 nudix motif; other site 205922013617 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 205922013618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013619 active site 205922013620 phosphorylation site [posttranslational modification] 205922013621 intermolecular recognition site; other site 205922013622 dimerization interface [polypeptide binding]; other site 205922013623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922013624 Response regulator receiver domain; Region: Response_reg; pfam00072 205922013625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013626 active site 205922013627 phosphorylation site [posttranslational modification] 205922013628 intermolecular recognition site; other site 205922013629 dimerization interface [polypeptide binding]; other site 205922013630 hypothetical protein; Provisional; Region: PRK13560 205922013631 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 205922013632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922013633 metal binding site [ion binding]; metal-binding site 205922013634 active site 205922013635 I-site; other site 205922013636 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 205922013637 Response regulator receiver domain; Region: Response_reg; pfam00072 205922013638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013639 active site 205922013640 phosphorylation site [posttranslational modification] 205922013641 intermolecular recognition site; other site 205922013642 dimerization interface [polypeptide binding]; other site 205922013643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922013644 metal binding site [ion binding]; metal-binding site 205922013645 active site 205922013646 I-site; other site 205922013647 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 205922013648 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 205922013649 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 205922013650 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 205922013651 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013652 ATP binding site [chemical binding]; other site 205922013653 G-X-G motif; other site 205922013654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013655 active site 205922013656 phosphorylation site [posttranslational modification] 205922013657 intermolecular recognition site; other site 205922013658 dimerization interface [polypeptide binding]; other site 205922013659 sensory histidine kinase AtoS; Provisional; Region: PRK11360 205922013660 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922013661 dimer interface [polypeptide binding]; other site 205922013662 phosphorylation site [posttranslational modification] 205922013663 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013664 ATP binding site [chemical binding]; other site 205922013665 Mg2+ binding site [ion binding]; other site 205922013666 G-X-G motif; other site 205922013667 amino acid transporter; Region: 2A0306; TIGR00909 205922013668 Spore germination protein; Region: Spore_permease; cl15802 205922013669 Predicted amidohydrolase [General function prediction only]; Region: COG0388 205922013670 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 205922013671 putative active site [active] 205922013672 catalytic triad [active] 205922013673 putative dimer interface [polypeptide binding]; other site 205922013674 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 205922013675 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 205922013676 DNA binding residues [nucleotide binding] 205922013677 dimerization interface [polypeptide binding]; other site 205922013678 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 205922013679 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 205922013680 active site 205922013681 FMN binding site [chemical binding]; other site 205922013682 substrate binding site [chemical binding]; other site 205922013683 3Fe-4S cluster binding site [ion binding]; other site 205922013684 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 205922013685 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 205922013686 Spore germination protein; Region: Spore_permease; cl15802 205922013687 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 205922013688 Transglycosylase; Region: Transgly; cl07896 205922013689 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922013690 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 205922013691 putative fimbrial protein TcfA; Provisional; Region: PRK15308 205922013692 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 205922013693 Helix-turn-helix domains; Region: HTH; cl00088 205922013694 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 205922013695 FAD binding pocket [chemical binding]; other site 205922013696 FAD binding motif [chemical binding]; other site 205922013697 phosphate binding motif [ion binding]; other site 205922013698 NAD binding pocket [chemical binding]; other site 205922013699 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 205922013700 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 205922013701 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 205922013702 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 205922013703 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 205922013704 Trp docking motif [polypeptide binding]; other site 205922013705 putative active site [active] 205922013706 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 205922013707 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 205922013708 Walker A motif; other site 205922013709 ATP binding site [chemical binding]; other site 205922013710 Walker B motif; other site 205922013711 arginine finger; other site 205922013712 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 205922013713 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 205922013714 YhhN-like protein; Region: YhhN; cl01505 205922013715 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 205922013716 S-adenosylmethionine binding site [chemical binding]; other site 205922013717 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922013718 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 205922013719 S-adenosylmethionine binding site [chemical binding]; other site 205922013720 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 205922013721 nucleoside/Zn binding site; other site 205922013722 dimer interface [polypeptide binding]; other site 205922013723 catalytic motif [active] 205922013724 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 205922013725 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922013726 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922013727 C-terminal region of Pasteurella multocida toxin residues 569-1285; Region: PMT_C; pfam11647 205922013728 GMP synthase; Reviewed; Region: guaA; PRK00074 205922013729 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 205922013730 AMP/PPi binding site [chemical binding]; other site 205922013731 candidate oxyanion hole; other site 205922013732 catalytic triad [active] 205922013733 potential glutamine specificity residues [chemical binding]; other site 205922013734 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 205922013735 ATP Binding subdomain [chemical binding]; other site 205922013736 Ligand Binding sites [chemical binding]; other site 205922013737 Dimerization subdomain; other site 205922013738 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 205922013739 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 205922013740 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 205922013741 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 205922013742 active site 205922013743 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 205922013744 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 205922013745 Helix-turn-helix domains; Region: HTH; cl00088 205922013746 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 205922013747 dimerization interface [polypeptide binding]; other site 205922013748 substrate binding pocket [chemical binding]; other site 205922013749 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 205922013750 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 205922013751 generic binding surface II; other site 205922013752 generic binding surface I; other site 205922013753 Peptidase family M23; Region: Peptidase_M23; pfam01551 205922013754 2-isopropylmalate synthase; Validated; Region: PRK03739 205922013755 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 205922013756 active site 205922013757 catalytic residues [active] 205922013758 metal binding site [ion binding]; metal-binding site 205922013759 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 205922013760 Predicted amidohydrolase [General function prediction only]; Region: COG0388 205922013761 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 205922013762 putative active site [active] 205922013763 catalytic triad [active] 205922013764 dimer interface [polypeptide binding]; other site 205922013765 multimer interface [polypeptide binding]; other site 205922013766 methionine aminotransferase; Validated; Region: PRK09082 205922013767 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 205922013768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922013769 homodimer interface [polypeptide binding]; other site 205922013770 catalytic residue [active] 205922013771 GTP-binding protein Der; Reviewed; Region: PRK00093 205922013772 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 205922013773 G1 box; other site 205922013774 GTP/Mg2+ binding site [chemical binding]; other site 205922013775 Switch I region; other site 205922013776 G2 box; other site 205922013777 Switch II region; other site 205922013778 G3 box; other site 205922013779 G4 box; other site 205922013780 G5 box; other site 205922013781 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 205922013782 G1 box; other site 205922013783 GTP/Mg2+ binding site [chemical binding]; other site 205922013784 Switch I region; other site 205922013785 G2 box; other site 205922013786 G3 box; other site 205922013787 Switch II region; other site 205922013788 G4 box; other site 205922013789 G5 box; other site 205922013790 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 205922013791 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 205922013792 Trp docking motif [polypeptide binding]; other site 205922013793 active site 205922013794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 205922013795 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 205922013796 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 205922013797 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 205922013798 dimer interface [polypeptide binding]; other site 205922013799 motif 1; other site 205922013800 active site 205922013801 motif 2; other site 205922013802 motif 3; other site 205922013803 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 205922013804 anticodon binding site; other site 205922013805 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 205922013806 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 205922013807 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 205922013808 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 205922013809 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 205922013810 non-specific DNA binding site [nucleotide binding]; other site 205922013811 salt bridge; other site 205922013812 sequence-specific DNA binding site [nucleotide binding]; other site 205922013813 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 205922013814 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 205922013815 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 205922013816 binding surface 205922013817 TPR motif; other site 205922013818 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 205922013819 binding surface 205922013820 TPR motif; other site 205922013821 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 205922013822 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 205922013823 FeS/SAM binding site; other site 205922013824 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 205922013825 active site 205922013826 multimer interface [polypeptide binding]; other site 205922013827 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 205922013828 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 205922013829 catalytic loop [active] 205922013830 iron binding site [ion binding]; other site 205922013831 chaperone protein HscA; Provisional; Region: hscA; PRK05183 205922013832 Cell division protein FtsA; Region: FtsA; cl11496 205922013833 co-chaperone HscB; Provisional; Region: hscB; PRK00294 205922013834 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 205922013835 HSP70 interaction site [polypeptide binding]; other site 205922013836 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 205922013837 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 205922013838 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 205922013839 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 205922013840 trimerization site [polypeptide binding]; other site 205922013841 active site 205922013842 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 205922013843 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 205922013844 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205922013845 catalytic residue [active] 205922013846 Helix-turn-helix domains; Region: HTH; cl00088 205922013847 Rrf2 family protein; Region: rrf2_super; TIGR00738 205922013848 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 205922013849 serine O-acetyltransferase; Region: cysE; TIGR01172 205922013850 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 205922013851 trimer interface [polypeptide binding]; other site 205922013852 active site 205922013853 substrate binding site [chemical binding]; other site 205922013854 CoA binding site [chemical binding]; other site 205922013855 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 205922013856 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 205922013857 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 205922013858 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 205922013859 active site 205922013860 dimerization interface [polypeptide binding]; other site 205922013861 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 205922013862 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 205922013863 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 205922013864 Protein export membrane protein; Region: SecD_SecF; cl14618 205922013865 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 205922013866 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 205922013867 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 205922013868 Protein export membrane protein; Region: SecD_SecF; cl14618 205922013869 Preprotein translocase subunit; Region: YajC; cl00806 205922013870 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 205922013871 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 205922013872 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 205922013873 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 205922013874 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922013875 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013876 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 205922013877 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013878 ATP binding site [chemical binding]; other site 205922013879 Mg2+ binding site [ion binding]; other site 205922013880 G-X-G motif; other site 205922013881 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 205922013882 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 205922013883 active site 205922013884 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 205922013885 metal binding site [ion binding]; metal-binding site 205922013886 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 205922013887 putative active site [active] 205922013888 putative metal binding site [ion binding]; other site 205922013889 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 205922013890 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 205922013891 acetylornithine aminotransferase; Provisional; Region: PRK02627 205922013892 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 205922013893 inhibitor-cofactor binding pocket; inhibition site 205922013894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922013895 catalytic residue [active] 205922013896 Helix-turn-helix domains; Region: HTH; cl00088 205922013897 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922013898 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 205922013899 putative effector binding pocket; other site 205922013900 putative dimerization interface [polypeptide binding]; other site 205922013901 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 205922013902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922013903 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922013904 Coenzyme A binding pocket [chemical binding]; other site 205922013905 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 205922013906 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 205922013907 homotrimer interaction site [polypeptide binding]; other site 205922013908 putative active site [active] 205922013909 UbiA prenyltransferase family; Region: UbiA; cl00337 205922013910 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 205922013911 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 205922013912 Subunit I/III interface [polypeptide binding]; other site 205922013913 Subunit III/IV interface [polypeptide binding]; other site 205922013914 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 205922013915 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 205922013916 D-pathway; other site 205922013917 Putative ubiquinol binding site [chemical binding]; other site 205922013918 Low-spin heme (heme b) binding site [chemical binding]; other site 205922013919 Putative water exit pathway; other site 205922013920 Binuclear center (heme o3/CuB) [ion binding]; other site 205922013921 K-pathway; other site 205922013922 Putative proton exit pathway; other site 205922013923 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 205922013924 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 205922013925 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 205922013926 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 205922013927 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 205922013928 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 205922013929 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 205922013930 heme-binding site [chemical binding]; other site 205922013931 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 205922013932 FAD binding pocket [chemical binding]; other site 205922013933 FAD binding motif [chemical binding]; other site 205922013934 phosphate binding motif [ion binding]; other site 205922013935 beta-alpha-beta structure motif; other site 205922013936 NAD binding pocket [chemical binding]; other site 205922013937 Heme binding pocket [chemical binding]; other site 205922013938 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 205922013939 GAF domain; Region: GAF; cl15785 205922013940 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 205922013941 Walker A motif; other site 205922013942 ATP binding site [chemical binding]; other site 205922013943 Walker B motif; other site 205922013944 Helix-turn-helix domains; Region: HTH; cl00088 205922013945 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 205922013946 Response regulator receiver domain; Region: Response_reg; pfam00072 205922013947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013948 active site 205922013949 phosphorylation site [posttranslational modification] 205922013950 intermolecular recognition site; other site 205922013951 dimerization interface [polypeptide binding]; other site 205922013952 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 205922013953 Flagellin N-methylase; Region: FliB; cl00497 205922013954 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 205922013955 PAS fold; Region: PAS_3; pfam08447 205922013956 putative active site [active] 205922013957 heme pocket [chemical binding]; other site 205922013958 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922013959 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922013960 dimer interface [polypeptide binding]; other site 205922013961 putative CheW interface [polypeptide binding]; other site 205922013962 putative pectinesterase/pectinesterase inhibitor; Region: PLN02506 205922013963 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 205922013964 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922013965 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922013966 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 205922013967 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 205922013968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922013969 active site 205922013970 phosphorylation site [posttranslational modification] 205922013971 intermolecular recognition site; other site 205922013972 dimerization interface [polypeptide binding]; other site 205922013973 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 205922013974 DNA binding site [nucleotide binding] 205922013975 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 205922013976 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 205922013977 dimer interface [polypeptide binding]; other site 205922013978 phosphorylation site [posttranslational modification] 205922013979 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922013980 ATP binding site [chemical binding]; other site 205922013981 Mg2+ binding site [ion binding]; other site 205922013982 G-X-G motif; other site 205922013983 outer membrane porin, OprD family; Region: OprD; pfam03573 205922013984 Cache domain; Region: Cache_1; pfam02743 205922013985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922013986 metal binding site [ion binding]; metal-binding site 205922013987 active site 205922013988 I-site; other site 205922013989 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 205922013990 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 205922013991 cell division protein FtsZ; Validated; Region: PRK09330 205922013992 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 205922013993 nucleotide binding site [chemical binding]; other site 205922013994 SulA interaction site; other site 205922013995 cell division protein FtsA; Region: ftsA; TIGR01174 205922013996 Cell division protein FtsA; Region: FtsA; cl11496 205922013997 Cell division protein FtsA; Region: FtsA; cl11496 205922013998 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 205922013999 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 205922014000 Cell division protein FtsQ; Region: FtsQ; pfam03799 205922014001 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 205922014002 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 205922014003 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922014004 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 205922014005 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205922014006 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205922014007 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205922014008 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 205922014009 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 205922014010 active site 205922014011 homodimer interface [polypeptide binding]; other site 205922014012 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 205922014013 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 205922014014 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205922014015 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 205922014016 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 205922014017 Mg++ binding site [ion binding]; other site 205922014018 putative catalytic motif [active] 205922014019 putative substrate binding site [chemical binding]; other site 205922014020 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205922014021 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 205922014022 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205922014023 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205922014024 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 205922014025 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205922014026 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205922014027 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205922014028 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 205922014029 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 205922014030 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922014031 Septum formation initiator; Region: DivIC; cl11433 205922014032 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 205922014033 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922014034 cell division protein MraZ; Reviewed; Region: PRK00326 205922014035 MraZ protein; Region: MraZ; pfam02381 205922014036 MraZ protein; Region: MraZ; pfam02381 205922014037 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 205922014038 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 205922014039 LppC putative lipoprotein; Region: LppC; pfam04348 205922014040 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 205922014041 putative ligand binding site [chemical binding]; other site 205922014042 Restriction endonuclease; Region: Mrr_cat; cl00516 205922014043 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 205922014044 dimer interface [polypeptide binding]; other site 205922014045 active site 205922014046 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 205922014047 BON domain; Region: BON; cl02771 205922014048 BON domain; Region: BON; cl02771 205922014049 Stringent starvation protein B; Region: SspB; cl01120 205922014050 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 205922014051 stringent starvation protein A; Provisional; Region: sspA; PRK09481 205922014052 C-terminal domain interface [polypeptide binding]; other site 205922014053 putative GSH binding site (G-site) [chemical binding]; other site 205922014054 dimer interface [polypeptide binding]; other site 205922014055 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 205922014056 dimer interface [polypeptide binding]; other site 205922014057 N-terminal domain interface [polypeptide binding]; other site 205922014058 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 205922014059 cytochrome b; Provisional; Region: CYTB; MTH00145 205922014060 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 205922014061 Qi binding site; other site 205922014062 intrachain domain interface; other site 205922014063 interchain domain interface [polypeptide binding]; other site 205922014064 heme bH binding site [chemical binding]; other site 205922014065 heme bL binding site [chemical binding]; other site 205922014066 Qo binding site; other site 205922014067 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 205922014068 interchain domain interface [polypeptide binding]; other site 205922014069 intrachain domain interface; other site 205922014070 Qi binding site; other site 205922014071 Qo binding site; other site 205922014072 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 205922014073 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 205922014074 [2Fe-2S] cluster binding site [ion binding]; other site 205922014075 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 205922014076 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 205922014077 23S rRNA interface [nucleotide binding]; other site 205922014078 L3 interface [polypeptide binding]; other site 205922014079 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 205922014080 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 205922014081 active site 205922014082 catalytic tetrad [active] 205922014083 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 205922014084 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922014085 active site 205922014086 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922014087 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 205922014088 conserved cys residue [active] 205922014089 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922014090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922014091 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 205922014092 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922014093 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 205922014094 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 205922014095 active site 205922014096 HIGH motif; other site 205922014097 dimer interface [polypeptide binding]; other site 205922014098 KMSKS motif; other site 205922014099 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 205922014100 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 205922014101 OpgC protein; Region: OpgC_C; cl00792 205922014102 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205922014103 ligand binding site [chemical binding]; other site 205922014104 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922014105 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 205922014106 active site 205922014107 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922014108 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922014109 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 205922014110 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 205922014111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922014112 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 205922014113 DNA binding residues [nucleotide binding] 205922014114 dimerization interface [polypeptide binding]; other site 205922014115 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 205922014116 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 205922014117 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 205922014118 AMP-binding enzyme; Region: AMP-binding; cl15778 205922014119 LysE type translocator; Region: LysE; cl00565 205922014120 glycerate dehydrogenase; Provisional; Region: PRK06487 205922014121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014122 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 205922014123 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 205922014124 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 205922014125 S-adenosylmethionine binding site [chemical binding]; other site 205922014126 Predicted membrane protein [Function unknown]; Region: COG2119 205922014127 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 205922014128 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 205922014129 Peptidase family M48; Region: Peptidase_M48; cl12018 205922014130 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 205922014131 dimerization interface [polypeptide binding]; other site 205922014132 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922014133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922014134 dimer interface [polypeptide binding]; other site 205922014135 putative CheW interface [polypeptide binding]; other site 205922014136 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 205922014137 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 205922014138 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 205922014139 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922014140 putative acyl-acceptor binding pocket; other site 205922014141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014142 Predicted dehydrogenase [General function prediction only]; Region: COG0579 205922014143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922014144 active site 205922014145 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922014146 active site 205922014147 uracil-xanthine permease; Region: ncs2; TIGR00801 205922014148 ferrochelatase; Reviewed; Region: hemH; PRK00035 205922014149 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 205922014150 C-terminal domain interface [polypeptide binding]; other site 205922014151 active site 205922014152 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 205922014153 active site 205922014154 N-terminal domain interface [polypeptide binding]; other site 205922014155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014156 TIGR01777 family protein; Region: yfcH 205922014157 NAD(P) binding site [chemical binding]; other site 205922014158 active site 205922014159 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 205922014160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014161 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 205922014162 Protein of unknown function (DUF523); Region: DUF523; cl00733 205922014163 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 205922014164 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 205922014165 DNA binding residues [nucleotide binding] 205922014166 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 205922014167 B12 binding domain; Region: B12-binding_2; cl03653 205922014168 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 205922014169 DNA photolyase; Region: DNA_photolyase; pfam00875 205922014170 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 205922014171 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 205922014172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014173 short chain dehydrogenase; Provisional; Region: PRK06101 205922014174 NAD(P) binding site [chemical binding]; other site 205922014175 active site 205922014176 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 205922014177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014178 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 205922014179 Uncharacterized conserved protein [Function unknown]; Region: COG3496 205922014180 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 205922014181 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922014182 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 205922014183 S-adenosylmethionine binding site [chemical binding]; other site 205922014184 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 205922014185 Flagellin N-methylase; Region: FliB; cl00497 205922014186 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 205922014187 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 205922014188 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 205922014189 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 205922014190 ATP binding site [chemical binding]; other site 205922014191 substrate interface [chemical binding]; other site 205922014192 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 205922014193 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 205922014194 S-adenosylmethionine binding site [chemical binding]; other site 205922014195 peptide chain release factor 1; Validated; Region: prfA; PRK00591 205922014196 RF-1 domain; Region: RF-1; cl02875 205922014197 RF-1 domain; Region: RF-1; cl02875 205922014198 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 205922014199 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 205922014200 tRNA; other site 205922014201 putative tRNA binding site [nucleotide binding]; other site 205922014202 putative NADP binding site [chemical binding]; other site 205922014203 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 205922014204 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 205922014205 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 205922014206 binding surface 205922014207 TPR motif; other site 205922014208 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 205922014209 binding surface 205922014210 TPR motif; other site 205922014211 TPR repeat; Region: TPR_11; pfam13414 205922014212 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 205922014213 binding surface 205922014214 TPR motif; other site 205922014215 TPR repeat; Region: TPR_11; pfam13414 205922014216 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 205922014217 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 205922014218 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 205922014219 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 205922014220 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 205922014221 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 205922014222 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922014223 active site 205922014224 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 205922014225 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 205922014226 5S rRNA interface [nucleotide binding]; other site 205922014227 CTC domain interface [polypeptide binding]; other site 205922014228 L16 interface [polypeptide binding]; other site 205922014229 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 205922014230 putative active site [active] 205922014231 catalytic residue [active] 205922014232 GTP-binding protein YchF; Reviewed; Region: PRK09601 205922014233 YchF GTPase; Region: YchF; cd01900 205922014234 G1 box; other site 205922014235 GTP/Mg2+ binding site [chemical binding]; other site 205922014236 Switch I region; other site 205922014237 G2 box; other site 205922014238 Switch II region; other site 205922014239 G3 box; other site 205922014240 G4 box; other site 205922014241 G5 box; other site 205922014242 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 205922014243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922014244 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922014245 putative substrate translocation pore; other site 205922014246 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922014247 dimerization interface [polypeptide binding]; other site 205922014248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922014249 dimer interface [polypeptide binding]; other site 205922014250 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 205922014251 putative CheW interface [polypeptide binding]; other site 205922014252 S-type Pyocin; Region: Pyocin_S; pfam06958 205922014253 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 205922014254 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 205922014255 S-type Pyocin; Region: Pyocin_S; pfam06958 205922014256 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 205922014257 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 205922014258 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 205922014259 putative active site [active] 205922014260 Zn binding site [ion binding]; other site 205922014261 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 205922014262 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 205922014263 Flavin Reductases; Region: FlaRed; cl00801 205922014264 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 205922014265 PAS domain; Region: PAS_9; pfam13426 205922014266 putative active site [active] 205922014267 heme pocket [chemical binding]; other site 205922014268 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 205922014269 PAS domain; Region: PAS_9; pfam13426 205922014270 putative active site [active] 205922014271 heme pocket [chemical binding]; other site 205922014272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922014273 dimer interface [polypeptide binding]; other site 205922014274 putative CheW interface [polypeptide binding]; other site 205922014275 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922014276 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922014277 putative substrate translocation pore; other site 205922014278 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 205922014279 Hsp70 protein; Region: HSP70; pfam00012 205922014280 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 205922014281 Proteins containing SET domain [General function prediction only]; Region: COG2940 205922014282 SET domain; Region: SET; cl02566 205922014283 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 205922014284 active site clefts [active] 205922014285 zinc binding site [ion binding]; other site 205922014286 dimer interface [polypeptide binding]; other site 205922014287 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 205922014288 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922014289 Coenzyme A binding pocket [chemical binding]; other site 205922014290 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 205922014291 mce related protein; Region: MCE; pfam02470 205922014292 mce related protein; Region: MCE; pfam02470 205922014293 mce related protein; Region: MCE; pfam02470 205922014294 mce related protein; Region: MCE; pfam02470 205922014295 mce related protein; Region: MCE; pfam02470 205922014296 mce related protein; Region: MCE; pfam02470 205922014297 Paraquat-inducible protein A; Region: PqiA; pfam04403 205922014298 Paraquat-inducible protein A; Region: PqiA; pfam04403 205922014299 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 205922014300 TMAO/DMSO reductase; Reviewed; Region: PRK05363 205922014301 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 205922014302 Moco binding site; other site 205922014303 metal coordination site [ion binding]; other site 205922014304 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 205922014305 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 205922014306 ketol-acid reductoisomerase; Provisional; Region: PRK05479 205922014307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014308 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 205922014309 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 205922014310 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 205922014311 putative valine binding site [chemical binding]; other site 205922014312 dimer interface [polypeptide binding]; other site 205922014313 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 205922014314 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 205922014315 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 205922014316 PYR/PP interface [polypeptide binding]; other site 205922014317 dimer interface [polypeptide binding]; other site 205922014318 TPP binding site [chemical binding]; other site 205922014319 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 205922014320 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 205922014321 TPP-binding site [chemical binding]; other site 205922014322 dimer interface [polypeptide binding]; other site 205922014323 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 205922014324 tRNA pseudouridine synthase C; Region: DUF446; cl01187 205922014325 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 205922014326 TPR motif; other site 205922014327 binding surface 205922014328 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 205922014329 Transglycosylase; Region: Transgly; cl07896 205922014330 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922014331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 205922014332 AAA domain; Region: AAA_33; pfam13671 205922014333 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 205922014334 ATP-binding site [chemical binding]; other site 205922014335 Gluconate-6-phosphate binding site [chemical binding]; other site 205922014336 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 205922014337 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 205922014338 TfoX N-terminal domain; Region: TfoX_N; cl01167 205922014339 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 205922014340 ligand binding site [chemical binding]; other site 205922014341 flexible hinge region; other site 205922014342 Protein of unknown function, DUF399; Region: DUF399; cl01139 205922014343 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 205922014344 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 205922014345 Walker A/P-loop; other site 205922014346 ATP binding site [chemical binding]; other site 205922014347 Q-loop/lid; other site 205922014348 ABC transporter signature motif; other site 205922014349 Walker B; other site 205922014350 D-loop; other site 205922014351 H-loop/switch region; other site 205922014352 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 205922014353 ABC-ATPase subunit interface; other site 205922014354 dimer interface [polypeptide binding]; other site 205922014355 putative PBP binding regions; other site 205922014356 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 205922014357 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 205922014358 intersubunit interface [polypeptide binding]; other site 205922014359 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 205922014360 iron-sulfur cluster [ion binding]; other site 205922014361 [2Fe-2S] cluster binding site [ion binding]; other site 205922014362 Sugar fermentation stimulation protein; Region: SfsA; cl00647 205922014363 aminotransferase; Validated; Region: PRK07337 205922014364 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 205922014365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922014366 homodimer interface [polypeptide binding]; other site 205922014367 catalytic residue [active] 205922014368 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 205922014369 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205922014370 active site 205922014371 nucleotide binding site [chemical binding]; other site 205922014372 HIGH motif; other site 205922014373 KMSKS motif; other site 205922014374 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 205922014375 Na binding site [ion binding]; other site 205922014376 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 205922014377 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922014378 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 205922014379 dimer interface [polypeptide binding]; other site 205922014380 phosphorylation site [posttranslational modification] 205922014381 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922014382 ATP binding site [chemical binding]; other site 205922014383 Mg2+ binding site [ion binding]; other site 205922014384 G-X-G motif; other site 205922014385 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922014386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922014387 active site 205922014388 phosphorylation site [posttranslational modification] 205922014389 intermolecular recognition site; other site 205922014390 dimerization interface [polypeptide binding]; other site 205922014391 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 205922014392 Walker A motif; other site 205922014393 ATP binding site [chemical binding]; other site 205922014394 Walker B motif; other site 205922014395 arginine finger; other site 205922014396 poly(A) polymerase; Region: pcnB; TIGR01942 205922014397 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 205922014398 active site 205922014399 NTP binding site [chemical binding]; other site 205922014400 metal binding triad [ion binding]; metal-binding site 205922014401 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 205922014402 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 205922014403 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 205922014404 catalytic center binding site [active] 205922014405 ATP binding site [chemical binding]; other site 205922014406 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 205922014407 oligomerization interface [polypeptide binding]; other site 205922014408 active site 205922014409 metal binding site [ion binding]; metal-binding site 205922014410 Pantoate-beta-alanine ligase; Region: PanC; cd00560 205922014411 pantoate--beta-alanine ligase; Region: panC; TIGR00018 205922014412 active site 205922014413 ATP-binding site [chemical binding]; other site 205922014414 pantoate-binding site; other site 205922014415 HXXH motif; other site 205922014416 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 205922014417 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 205922014418 active site 205922014419 dimer interface [polypeptide binding]; other site 205922014420 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 205922014421 dimer interface [polypeptide binding]; other site 205922014422 active site 205922014423 acetyl-CoA synthetase; Provisional; Region: PRK00174 205922014424 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 205922014425 AMP-binding enzyme; Region: AMP-binding; cl15778 205922014426 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922014427 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 205922014428 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 205922014429 putative RNA binding site [nucleotide binding]; other site 205922014430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922014431 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 205922014432 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 205922014433 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 205922014434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 205922014435 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 205922014436 BON domain; Region: BON; cl02771 205922014437 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 205922014438 Pilin (bacterial filament); Region: Pilin; pfam00114 205922014439 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 205922014440 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 205922014441 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 205922014442 Walker A motif; other site 205922014443 ATP binding site [chemical binding]; other site 205922014444 Walker B motif; other site 205922014445 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 205922014446 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922014447 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 205922014448 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 205922014449 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 205922014450 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 205922014451 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 205922014452 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 205922014453 CoA-binding site [chemical binding]; other site 205922014454 ATP-binding [chemical binding]; other site 205922014455 Domain of unknown function (DUF329); Region: DUF329; cl01144 205922014456 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 205922014457 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 205922014458 MOSC domain; Region: MOSC; pfam03473 205922014459 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 205922014460 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 205922014461 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922014462 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 205922014463 Ca2+ binding site [ion binding]; other site 205922014464 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 205922014465 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 205922014466 dimerization interface [polypeptide binding]; other site 205922014467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922014468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922014469 dimer interface [polypeptide binding]; other site 205922014470 putative CheW interface [polypeptide binding]; other site 205922014471 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 205922014472 Clp amino terminal domain; Region: Clp_N; pfam02861 205922014473 Clp amino terminal domain; Region: Clp_N; pfam02861 205922014474 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 205922014475 Walker A motif; other site 205922014476 ATP binding site [chemical binding]; other site 205922014477 Walker B motif; other site 205922014478 arginine finger; other site 205922014479 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 205922014480 Walker A motif; other site 205922014481 ATP binding site [chemical binding]; other site 205922014482 Walker B motif; other site 205922014483 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 205922014484 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 205922014485 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 205922014486 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 205922014487 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 205922014488 RNA binding surface [nucleotide binding]; other site 205922014489 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 205922014490 active site 205922014491 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 205922014492 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 205922014493 sensory histidine kinase AtoS; Provisional; Region: PRK11360 205922014494 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 205922014495 dimer interface [polypeptide binding]; other site 205922014496 phosphorylation site [posttranslational modification] 205922014497 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922014498 ATP binding site [chemical binding]; other site 205922014499 Mg2+ binding site [ion binding]; other site 205922014500 G-X-G motif; other site 205922014501 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 205922014502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922014503 active site 205922014504 phosphorylation site [posttranslational modification] 205922014505 intermolecular recognition site; other site 205922014506 dimerization interface [polypeptide binding]; other site 205922014507 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 205922014508 Walker A motif; other site 205922014509 ATP binding site [chemical binding]; other site 205922014510 Walker B motif; other site 205922014511 arginine finger; other site 205922014512 Helix-turn-helix domains; Region: HTH; cl00088 205922014513 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 205922014514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014515 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 205922014516 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 205922014517 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 205922014518 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 205922014519 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 205922014520 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 205922014521 Type II transport protein GspH; Region: GspH; pfam12019 205922014522 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 205922014523 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 205922014524 Type II transport protein GspH; Region: GspH; pfam12019 205922014525 LytB protein; Region: LYTB; cl00507 205922014526 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 205922014527 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 205922014528 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 205922014529 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 205922014530 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205922014531 active site 205922014532 HIGH motif; other site 205922014533 nucleotide binding site [chemical binding]; other site 205922014534 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 205922014535 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 205922014536 active site 205922014537 KMSKS motif; other site 205922014538 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 205922014539 tRNA binding surface [nucleotide binding]; other site 205922014540 anticodon binding site; other site 205922014541 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 205922014542 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 205922014543 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 205922014544 active site 205922014545 Riboflavin kinase; Region: Flavokinase; cl03312 205922014546 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 205922014547 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 205922014548 CreA protein; Region: CreA; pfam05981 205922014549 gamma-glutamyl kinase; Provisional; Region: PRK05429 205922014550 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 205922014551 nucleotide binding site [chemical binding]; other site 205922014552 homotetrameric interface [polypeptide binding]; other site 205922014553 putative phosphate binding site [ion binding]; other site 205922014554 putative allosteric binding site; other site 205922014555 PUA domain; Region: PUA; cl00607 205922014556 GTPase CgtA; Reviewed; Region: obgE; PRK12298 205922014557 GTP1/OBG; Region: GTP1_OBG; pfam01018 205922014558 Obg GTPase; Region: Obg; cd01898 205922014559 G1 box; other site 205922014560 GTP/Mg2+ binding site [chemical binding]; other site 205922014561 Switch I region; other site 205922014562 G2 box; other site 205922014563 G3 box; other site 205922014564 Switch II region; other site 205922014565 G4 box; other site 205922014566 G5 box; other site 205922014567 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 205922014568 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 205922014569 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 205922014570 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 205922014571 substrate binding pocket [chemical binding]; other site 205922014572 chain length determination region; other site 205922014573 substrate-Mg2+ binding site; other site 205922014574 catalytic residues [active] 205922014575 aspartate-rich region 1; other site 205922014576 active site lid residues [active] 205922014577 aspartate-rich region 2; other site 205922014578 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 205922014579 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 205922014580 PhnA protein; Region: PhnA; pfam03831 205922014581 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 205922014582 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 205922014583 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 205922014584 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 205922014585 AAA domain; Region: AAA_32; pfam13654 205922014586 ATP-dependent protease Lon; Provisional; Region: PRK13765 205922014587 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 205922014588 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 205922014589 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 205922014590 transcription elongation factor regulatory protein; Validated; Region: PRK06342 205922014591 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205922014592 glutamate dehydrogenase; Provisional; Region: PRK09414 205922014593 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 205922014594 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 205922014595 NAD(P) binding site [chemical binding]; other site 205922014596 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 205922014597 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922014598 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922014599 ABC transporter; Region: ABC_tran_2; pfam12848 205922014600 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922014601 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 205922014602 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 205922014603 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 205922014604 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 205922014605 putative active site [active] 205922014606 heme pocket [chemical binding]; other site 205922014607 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922014608 metal binding site [ion binding]; metal-binding site 205922014609 active site 205922014610 I-site; other site 205922014611 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 205922014612 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 205922014613 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 205922014614 dimer interface [polypeptide binding]; other site 205922014615 active site 205922014616 glycine-pyridoxal phosphate binding site [chemical binding]; other site 205922014617 folate binding site [chemical binding]; other site 205922014618 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922014619 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 205922014620 Transcriptional regulators [Transcription]; Region: FadR; COG2186 205922014621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922014622 DNA-binding site [nucleotide binding]; DNA binding site 205922014623 FCD domain; Region: FCD; cl11656 205922014624 Transcriptional regulators [Transcription]; Region: GntR; COG1802 205922014625 Helix-turn-helix domains; Region: HTH; cl00088 205922014626 DNA-binding site [nucleotide binding]; DNA binding site 205922014627 FCD domain; Region: FCD; cl11656 205922014628 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 205922014629 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 205922014630 P-loop, Walker A motif; other site 205922014631 Base recognition motif; other site 205922014632 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 205922014633 Protein of unknown function (DUF466); Region: DUF466; cl01082 205922014634 carbon starvation protein A; Provisional; Region: PRK15015 205922014635 Carbon starvation protein CstA; Region: CstA; pfam02554 205922014636 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 205922014637 PilZ domain; Region: PilZ; cl01260 205922014638 DNA repair protein RadA; Provisional; Region: PRK11823 205922014639 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 205922014640 Walker A motif/ATP binding site; other site 205922014641 ATP binding site [chemical binding]; other site 205922014642 Walker B motif; other site 205922014643 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 205922014644 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 205922014645 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 205922014646 tetramer interface [polypeptide binding]; other site 205922014647 heme binding pocket [chemical binding]; other site 205922014648 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 205922014649 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 205922014650 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 205922014651 ferredoxin-NADP reductase; Provisional; Region: PRK10926 205922014652 FAD binding pocket [chemical binding]; other site 205922014653 FAD binding motif [chemical binding]; other site 205922014654 phosphate binding motif [ion binding]; other site 205922014655 beta-alpha-beta structure motif; other site 205922014656 NAD binding pocket [chemical binding]; other site 205922014657 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 205922014658 Autoinducer binding domain; Region: Autoind_bind; pfam03472 205922014659 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 205922014660 DNA binding residues [nucleotide binding] 205922014661 dimerization interface [polypeptide binding]; other site 205922014662 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 205922014663 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 205922014664 S-adenosylmethionine binding site [chemical binding]; other site 205922014665 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 205922014666 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 205922014667 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 205922014668 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 205922014669 H+ Antiporter protein; Region: 2A0121; TIGR00900 205922014670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922014671 putative substrate translocation pore; other site 205922014672 DJ-1 family protein; Region: not_thiJ; TIGR01383 205922014673 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 205922014674 conserved cys residue [active] 205922014675 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 205922014676 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922014677 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 205922014678 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 205922014679 Helix-turn-helix domains; Region: HTH; cl00088 205922014680 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922014681 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 205922014682 putative effector binding pocket; other site 205922014683 dimerization interface [polypeptide binding]; other site 205922014684 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 205922014685 active site 205922014686 trimer interface [polypeptide binding]; other site 205922014687 dimer interface [polypeptide binding]; other site 205922014688 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 205922014689 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 205922014690 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 205922014691 shikimate binding site; other site 205922014692 NAD(P) binding site [chemical binding]; other site 205922014693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922014694 Helix-turn-helix domains; Region: HTH; cl00088 205922014695 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 205922014696 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 205922014697 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 205922014698 dimer interface [polypeptide binding]; other site 205922014699 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 205922014700 active site 205922014701 Fe binding site [ion binding]; other site 205922014702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922014703 D-galactonate transporter; Region: 2A0114; TIGR00893 205922014704 putative substrate translocation pore; other site 205922014705 EamA-like transporter family; Region: EamA; cl01037 205922014706 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 205922014707 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 205922014708 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205922014709 Helix-turn-helix domains; Region: HTH; cl00088 205922014710 Bacterial transcriptional regulator; Region: IclR; pfam01614 205922014711 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 205922014712 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 205922014713 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 205922014714 active site 205922014715 catalytic tetrad [active] 205922014716 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 205922014717 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 205922014718 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 205922014719 active site 205922014720 motif I; other site 205922014721 motif II; other site 205922014722 acyl-CoA thioesterase II; Provisional; Region: PRK10526 205922014723 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 205922014724 active site 205922014725 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 205922014726 catalytic triad [active] 205922014727 dimer interface [polypeptide binding]; other site 205922014728 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 205922014729 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922014730 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 205922014731 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 205922014732 HI0933-like protein; Region: HI0933_like; pfam03486 205922014733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922014735 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 205922014736 DEAD-like helicases superfamily; Region: DEXDc; smart00487 205922014737 ATP binding site [chemical binding]; other site 205922014738 Mg++ binding site [ion binding]; other site 205922014739 motif III; other site 205922014740 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 205922014741 nucleotide binding region [chemical binding]; other site 205922014742 ATP-binding site [chemical binding]; other site 205922014743 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 205922014744 EamA-like transporter family; Region: EamA; cl01037 205922014745 EamA-like transporter family; Region: EamA; cl01037 205922014746 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 205922014747 Helix-turn-helix domains; Region: HTH; cl00088 205922014748 AsnC family; Region: AsnC_trans_reg; pfam01037 205922014749 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 205922014750 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 205922014751 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 205922014752 active site 205922014753 catalytic site [active] 205922014754 substrate binding site [chemical binding]; other site 205922014755 LabA_like proteins; Region: LabA; cd10911 205922014756 putative metal binding site [ion binding]; other site 205922014757 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 205922014758 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 205922014759 putative catalytic site [active] 205922014760 putative metal binding site [ion binding]; other site 205922014761 putative phosphate binding site [ion binding]; other site 205922014762 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 205922014763 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922014764 Walker A/P-loop; other site 205922014765 ATP binding site [chemical binding]; other site 205922014766 Q-loop/lid; other site 205922014767 ABC transporter signature motif; other site 205922014768 Walker B; other site 205922014769 D-loop; other site 205922014770 H-loop/switch region; other site 205922014771 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922014772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922014773 dimer interface [polypeptide binding]; other site 205922014774 conserved gate region; other site 205922014775 putative PBP binding loops; other site 205922014776 ABC-ATPase subunit interface; other site 205922014777 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 205922014778 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 205922014779 membrane-bound complex binding site; other site 205922014780 hinge residues; other site 205922014781 putative aminotransferase; Provisional; Region: PRK12403 205922014782 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 205922014783 inhibitor-cofactor binding pocket; inhibition site 205922014784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922014785 catalytic residue [active] 205922014786 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 205922014787 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 205922014788 NAD(P) binding site [chemical binding]; other site 205922014789 catalytic residues [active] 205922014790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922014791 Helix-turn-helix domains; Region: HTH; cl00088 205922014792 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 205922014793 putative substrate binding pocket [chemical binding]; other site 205922014794 dimerization interface [polypeptide binding]; other site 205922014795 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 205922014796 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 205922014797 ATP binding site [chemical binding]; other site 205922014798 putative Mg++ binding site [ion binding]; other site 205922014799 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 205922014800 nucleotide binding region [chemical binding]; other site 205922014801 ATP-binding site [chemical binding]; other site 205922014802 Helicase associated domain (HA2); Region: HA2; cl04503 205922014803 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 205922014804 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 205922014805 Cation efflux family; Region: Cation_efflux; cl00316 205922014806 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 205922014807 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 205922014808 Helix-turn-helix domains; Region: HTH; cl00088 205922014809 AsnC family; Region: AsnC_trans_reg; pfam01037 205922014810 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 205922014811 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 205922014812 pseudouridine synthase; Region: TIGR00093 205922014813 active site 205922014814 AMP nucleosidase; Provisional; Region: PRK08292 205922014815 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 205922014816 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 205922014817 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 205922014818 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922014819 active site 205922014820 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 205922014821 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 205922014822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922014823 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 205922014824 dimer interface [polypeptide binding]; other site 205922014825 phosphorylation site [posttranslational modification] 205922014826 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922014827 ATP binding site [chemical binding]; other site 205922014828 Mg2+ binding site [ion binding]; other site 205922014829 G-X-G motif; other site 205922014830 Response regulator receiver domain; Region: Response_reg; pfam00072 205922014831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922014832 active site 205922014833 phosphorylation site [posttranslational modification] 205922014834 intermolecular recognition site; other site 205922014835 dimerization interface [polypeptide binding]; other site 205922014836 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 205922014837 dimer interface [polypeptide binding]; other site 205922014838 substrate binding site [chemical binding]; other site 205922014839 ATP binding site [chemical binding]; other site 205922014840 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 205922014841 thiamine phosphate binding site [chemical binding]; other site 205922014842 active site 205922014843 pyrophosphate binding site [ion binding]; other site 205922014844 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 205922014845 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 205922014846 inhibitor-cofactor binding pocket; inhibition site 205922014847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922014848 catalytic residue [active] 205922014849 Sel1 repeat; Region: Sel1; cl02723 205922014850 Sel1 repeat; Region: Sel1; cl02723 205922014851 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 205922014852 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 205922014853 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 205922014854 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 205922014855 FeS/SAM binding site; other site 205922014856 TRAM domain; Region: TRAM; cl01282 205922014857 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 205922014858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922014859 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 205922014860 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 205922014861 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 205922014862 Transporter associated domain; Region: CorC_HlyC; cl08393 205922014863 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 205922014864 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 205922014865 putative active site [active] 205922014866 catalytic triad [active] 205922014867 putative dimer interface [polypeptide binding]; other site 205922014868 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 205922014869 putative active site [active] 205922014870 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 205922014871 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 205922014872 HIGH motif; other site 205922014873 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 205922014874 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205922014875 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205922014876 active site 205922014877 KMSKS motif; other site 205922014878 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 205922014879 tRNA binding surface [nucleotide binding]; other site 205922014880 Lipopolysaccharide-assembly; Region: LptE; cl01125 205922014881 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 205922014882 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 205922014883 Domain of unknown function; Region: DUF331; cl01149 205922014884 Transglycosylase SLT domain; Region: SLT_2; pfam13406 205922014885 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922014886 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922014887 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 205922014888 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 205922014889 dimer interface [polypeptide binding]; other site 205922014890 catalytic triad [active] 205922014891 lipoyl synthase; Provisional; Region: PRK05481 205922014892 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 205922014893 FeS/SAM binding site; other site 205922014894 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 205922014895 Protein of unknown function (DUF493); Region: DUF493; cl01102 205922014896 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 205922014897 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922014898 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 205922014899 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 205922014900 Sporulation related domain; Region: SPOR; cl10051 205922014901 Transglycosylase SLT domain; Region: SLT_2; pfam13406 205922014902 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 205922014903 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205922014904 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 205922014905 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 205922014906 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 205922014907 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 205922014908 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 205922014909 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 205922014910 Oligomerisation domain; Region: Oligomerisation; cl00519 205922014911 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 205922014912 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 205922014913 active site 205922014914 (T/H)XGH motif; other site 205922014915 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 205922014916 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 205922014917 putative catalytic cysteine [active] 205922014918 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 205922014919 active site 205922014920 DNA binding site [nucleotide binding] 205922014921 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 205922014922 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 205922014923 active site 205922014924 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 205922014925 LrgB-like family; Region: LrgB; cl00596 205922014926 LrgA family; Region: LrgA; cl00608 205922014927 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 205922014928 putative active site [active] 205922014929 putative catalytic site [active] 205922014930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 205922014931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 205922014932 MORN repeat; Region: MORN; cl14787 205922014933 Peptidase C13 family; Region: Peptidase_C13; cl02159 205922014934 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 205922014935 NAD binding site [chemical binding]; other site 205922014936 active site 205922014937 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 205922014938 aromatic acid decarboxylase; Validated; Region: PRK05920 205922014939 Flavoprotein; Region: Flavoprotein; cl08021 205922014940 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 205922014941 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205922014942 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205922014943 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205922014944 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 205922014945 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 205922014946 Walker A motif; other site 205922014947 ATP binding site [chemical binding]; other site 205922014948 Walker B motif; other site 205922014949 arginine finger; other site 205922014950 Helix-turn-helix domains; Region: HTH; cl00088 205922014951 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 205922014952 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922014953 NAD(P) binding site [chemical binding]; other site 205922014954 catalytic residues [active] 205922014955 ethanolamine permease; Region: 2A0305; TIGR00908 205922014956 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 205922014957 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 205922014958 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 205922014959 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922014960 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 205922014961 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 205922014962 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 205922014963 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 205922014964 dimer interface [polypeptide binding]; other site 205922014965 substrate binding site [chemical binding]; other site 205922014966 metal binding sites [ion binding]; metal-binding site 205922014967 Predicted transcriptional regulator [Transcription]; Region: COG2932 205922014968 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 205922014969 Catalytic site [active] 205922014970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 205922014971 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 205922014972 Predicted secreted protein [Function unknown]; Region: COG5445 205922014973 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 205922014974 Predicted secreted protein [Function unknown]; Region: COG5445 205922014975 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 205922014976 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 205922014977 MG2 domain; Region: A2M_N; pfam01835 205922014978 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 205922014979 Alpha-2-macroglobulin family; Region: A2M; pfam00207 205922014980 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 205922014981 surface patch; other site 205922014982 thioester region; other site 205922014983 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 205922014984 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; cl01916 205922014985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 205922014986 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 205922014987 Fic family protein [Function unknown]; Region: COG3177 205922014988 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 205922014989 Fic/DOC family; Region: Fic; cl00960 205922014990 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 205922014991 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 205922014992 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 205922014993 substrate binding pocket [chemical binding]; other site 205922014994 chain length determination region; other site 205922014995 substrate-Mg2+ binding site; other site 205922014996 catalytic residues [active] 205922014997 aspartate-rich region 1; other site 205922014998 active site lid residues [active] 205922014999 aspartate-rich region 2; other site 205922015000 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 205922015001 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 205922015002 TPP-binding site; other site 205922015003 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 205922015004 PYR/PP interface [polypeptide binding]; other site 205922015005 dimer interface [polypeptide binding]; other site 205922015006 TPP binding site [chemical binding]; other site 205922015007 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 205922015008 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 205922015009 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 205922015010 N-terminal plug; other site 205922015011 ligand-binding site [chemical binding]; other site 205922015012 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 205922015013 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 205922015014 cobalamin binding residues [chemical binding]; other site 205922015015 putative BtuC binding residues; other site 205922015016 dimer interface [polypeptide binding]; other site 205922015017 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 205922015018 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 205922015019 dimerization interface [polypeptide binding]; other site 205922015020 active site 205922015021 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 205922015022 substrate binding pocket [chemical binding]; other site 205922015023 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922015024 membrane-bound complex binding site; other site 205922015025 hinge residues; other site 205922015026 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 205922015027 tetramer interfaces [polypeptide binding]; other site 205922015028 binuclear metal-binding site [ion binding]; other site 205922015029 thiamine monophosphate kinase; Provisional; Region: PRK05731 205922015030 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 205922015031 ATP binding site [chemical binding]; other site 205922015032 dimerization interface [polypeptide binding]; other site 205922015033 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 205922015034 putative RNA binding site [nucleotide binding]; other site 205922015035 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 205922015036 homopentamer interface [polypeptide binding]; other site 205922015037 active site 205922015038 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 205922015039 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 205922015040 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 205922015041 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 205922015042 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 205922015043 Lumazine binding domain; Region: Lum_binding; pfam00677 205922015044 Lumazine binding domain; Region: Lum_binding; pfam00677 205922015045 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 205922015046 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 205922015047 catalytic motif [active] 205922015048 Zn binding site [ion binding]; other site 205922015049 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 205922015050 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 205922015051 ATP cone domain; Region: ATP-cone; pfam03477 205922015052 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 205922015053 Predicted methyltransferase [General function prediction only]; Region: COG3897 205922015054 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922015055 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 205922015056 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 205922015057 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 205922015058 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 205922015059 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 205922015060 Walker A/P-loop; other site 205922015061 ATP binding site [chemical binding]; other site 205922015062 Q-loop/lid; other site 205922015063 ABC transporter signature motif; other site 205922015064 Walker B; other site 205922015065 D-loop; other site 205922015066 H-loop/switch region; other site 205922015067 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205922015068 FtsX-like permease family; Region: FtsX; cl15850 205922015069 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 205922015070 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922015071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015072 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 205922015073 NAD(P) binding site [chemical binding]; other site 205922015074 active site 205922015075 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 205922015076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015077 NAD(P) binding site [chemical binding]; other site 205922015078 active site 205922015079 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 205922015080 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 205922015081 ATP binding site [chemical binding]; other site 205922015082 putative Mg++ binding site [ion binding]; other site 205922015083 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 205922015084 nucleotide binding region [chemical binding]; other site 205922015085 ATP-binding site [chemical binding]; other site 205922015086 DEAD/H associated; Region: DEAD_assoc; pfam08494 205922015087 putative mechanosensitive channel protein; Provisional; Region: PRK11465 205922015088 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922015089 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 205922015090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922015091 putative substrate translocation pore; other site 205922015092 Protein of unknown function DUF72; Region: DUF72; cl00777 205922015093 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 205922015094 putative catalytic site [active] 205922015095 putative metal binding site [ion binding]; other site 205922015096 putative phosphate binding site [ion binding]; other site 205922015097 cardiolipin synthase 2; Provisional; Region: PRK11263 205922015098 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 205922015099 putative active site [active] 205922015100 catalytic site [active] 205922015101 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 205922015102 putative active site [active] 205922015103 catalytic site [active] 205922015104 Predicted integral membrane protein [Function unknown]; Region: COG0392 205922015105 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 205922015106 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 205922015107 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922015108 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 205922015109 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922015110 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 205922015111 conserved cys residue [active] 205922015112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922015113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922015114 Isochorismatase family; Region: Isochorismatase; pfam00857 205922015115 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 205922015116 catalytic triad [active] 205922015117 conserved cis-peptide bond; other site 205922015118 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 205922015119 PspA/IM30 family; Region: PspA_IM30; pfam04012 205922015120 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 205922015121 Predicted membrane protein [Function unknown]; Region: COG3766 205922015122 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 205922015123 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 205922015124 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 205922015125 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 205922015126 dimer interface [polypeptide binding]; other site 205922015127 ssDNA binding site [nucleotide binding]; other site 205922015128 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205922015129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922015130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922015131 putative substrate translocation pore; other site 205922015132 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 205922015133 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 205922015134 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 205922015135 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 205922015136 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 205922015137 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 205922015138 heme binding site [chemical binding]; other site 205922015139 ferroxidase pore; other site 205922015140 ferroxidase diiron center [ion binding]; other site 205922015141 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 205922015142 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 205922015143 tetramer interface [polypeptide binding]; other site 205922015144 heme binding pocket [chemical binding]; other site 205922015145 NADPH binding site [chemical binding]; other site 205922015146 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 205922015147 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 205922015148 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 205922015149 alphaNTD homodimer interface [polypeptide binding]; other site 205922015150 alphaNTD - beta interaction site [polypeptide binding]; other site 205922015151 alphaNTD - beta' interaction site [polypeptide binding]; other site 205922015152 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 205922015153 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 205922015154 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 205922015155 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 205922015156 RNA binding surface [nucleotide binding]; other site 205922015157 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 205922015158 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 205922015159 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 205922015160 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 205922015161 SecY translocase; Region: SecY; pfam00344 205922015162 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 205922015163 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 205922015164 23S rRNA binding site [nucleotide binding]; other site 205922015165 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 205922015166 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 205922015167 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 205922015168 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 205922015169 5S rRNA interface [nucleotide binding]; other site 205922015170 23S rRNA interface [nucleotide binding]; other site 205922015171 L5 interface [polypeptide binding]; other site 205922015172 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 205922015173 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 205922015174 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 205922015175 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 205922015176 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 205922015177 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 205922015178 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 205922015179 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 205922015180 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 205922015181 KOW motif; Region: KOW; cl00354 205922015182 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 205922015183 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 205922015184 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 205922015185 23S rRNA interface [nucleotide binding]; other site 205922015186 putative translocon interaction site; other site 205922015187 signal recognition particle (SRP54) interaction site; other site 205922015188 L23 interface [polypeptide binding]; other site 205922015189 trigger factor interaction site; other site 205922015190 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 205922015191 23S rRNA interface [nucleotide binding]; other site 205922015192 5S rRNA interface [nucleotide binding]; other site 205922015193 putative antibiotic binding site [chemical binding]; other site 205922015194 L25 interface [polypeptide binding]; other site 205922015195 L27 interface [polypeptide binding]; other site 205922015196 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 205922015197 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 205922015198 G-X-X-G motif; other site 205922015199 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 205922015200 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 205922015201 protein-rRNA interface [nucleotide binding]; other site 205922015202 putative translocon binding site; other site 205922015203 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 205922015204 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 205922015205 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 205922015206 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 205922015207 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 205922015208 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 205922015209 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 205922015210 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 205922015211 elongation factor Tu; Reviewed; Region: PRK00049 205922015212 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 205922015213 G1 box; other site 205922015214 GEF interaction site [polypeptide binding]; other site 205922015215 GTP/Mg2+ binding site [chemical binding]; other site 205922015216 Switch I region; other site 205922015217 G2 box; other site 205922015218 G3 box; other site 205922015219 Switch II region; other site 205922015220 G4 box; other site 205922015221 G5 box; other site 205922015222 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 205922015223 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 205922015224 Antibiotic Binding Site [chemical binding]; other site 205922015225 elongation factor G; Reviewed; Region: PRK00007 205922015226 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 205922015227 G1 box; other site 205922015228 putative GEF interaction site [polypeptide binding]; other site 205922015229 GTP/Mg2+ binding site [chemical binding]; other site 205922015230 Switch I region; other site 205922015231 G2 box; other site 205922015232 G3 box; other site 205922015233 Switch II region; other site 205922015234 G4 box; other site 205922015235 G5 box; other site 205922015236 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 205922015237 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 205922015238 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 205922015239 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 205922015240 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 205922015241 S17 interaction site [polypeptide binding]; other site 205922015242 S8 interaction site; other site 205922015243 16S rRNA interaction site [nucleotide binding]; other site 205922015244 streptomycin interaction site [chemical binding]; other site 205922015245 23S rRNA interaction site [nucleotide binding]; other site 205922015246 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 205922015247 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 205922015248 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 205922015249 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 205922015250 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 205922015251 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 205922015252 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 205922015253 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 205922015254 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 205922015255 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 205922015256 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 205922015257 DNA binding site [nucleotide binding] 205922015258 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 205922015259 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 205922015260 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 205922015261 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 205922015262 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 205922015263 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 205922015264 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 205922015265 RPB11 interaction site [polypeptide binding]; other site 205922015266 RPB12 interaction site [polypeptide binding]; other site 205922015267 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 205922015268 RPB3 interaction site [polypeptide binding]; other site 205922015269 RPB1 interaction site [polypeptide binding]; other site 205922015270 RPB11 interaction site [polypeptide binding]; other site 205922015271 RPB10 interaction site [polypeptide binding]; other site 205922015272 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 205922015273 core dimer interface [polypeptide binding]; other site 205922015274 peripheral dimer interface [polypeptide binding]; other site 205922015275 L10 interface [polypeptide binding]; other site 205922015276 L11 interface [polypeptide binding]; other site 205922015277 putative EF-Tu interaction site [polypeptide binding]; other site 205922015278 putative EF-G interaction site [polypeptide binding]; other site 205922015279 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 205922015280 23S rRNA interface [nucleotide binding]; other site 205922015281 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 205922015282 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 205922015283 mRNA/rRNA interface [nucleotide binding]; other site 205922015284 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 205922015285 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 205922015286 23S rRNA interface [nucleotide binding]; other site 205922015287 L7/L12 interface [polypeptide binding]; other site 205922015288 putative thiostrepton binding site; other site 205922015289 L25 interface [polypeptide binding]; other site 205922015290 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 205922015291 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 205922015292 putative homodimer interface [polypeptide binding]; other site 205922015293 KOW motif; Region: KOW; cl00354 205922015294 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 205922015295 elongation factor Tu; Reviewed; Region: PRK00049 205922015296 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 205922015297 G1 box; other site 205922015298 GEF interaction site [polypeptide binding]; other site 205922015299 GTP/Mg2+ binding site [chemical binding]; other site 205922015300 Switch I region; other site 205922015301 G2 box; other site 205922015302 G3 box; other site 205922015303 Switch II region; other site 205922015304 G4 box; other site 205922015305 G5 box; other site 205922015306 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 205922015307 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 205922015308 Antibiotic Binding Site [chemical binding]; other site 205922015309 Type III pantothenate kinase; Region: Pan_kinase; cl09130 205922015310 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 205922015311 Helix-turn-helix domains; Region: HTH; cl00088 205922015312 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 205922015313 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 205922015314 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 205922015315 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 205922015316 active site 205922015317 HIGH motif; other site 205922015318 dimer interface [polypeptide binding]; other site 205922015319 KMSKS motif; other site 205922015320 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 205922015321 putative peptidase; Provisional; Region: PRK11649 205922015322 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 205922015323 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 205922015324 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 205922015325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015326 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 205922015327 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 205922015328 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 205922015329 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 205922015330 FMN binding site [chemical binding]; other site 205922015331 substrate binding site [chemical binding]; other site 205922015332 putative catalytic residue [active] 205922015333 Protein of unknown function (DUF805); Region: DUF805; cl01224 205922015334 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 205922015335 classical (c) SDRs; Region: SDR_c; cd05233 205922015336 NAD(P) binding site [chemical binding]; other site 205922015337 active site 205922015338 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 205922015339 nucleotide binding site/active site [active] 205922015340 HIT family signature motif; other site 205922015341 catalytic residue [active] 205922015342 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 205922015343 diiron binding motif [ion binding]; other site 205922015344 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 205922015345 OsmC-like protein; Region: OsmC; cl00767 205922015346 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 205922015347 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 205922015348 ligand binding site [chemical binding]; other site 205922015349 flexible hinge region; other site 205922015350 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 205922015351 putative switch regulator; other site 205922015352 non-specific DNA interactions [nucleotide binding]; other site 205922015353 DNA binding site [nucleotide binding] 205922015354 sequence specific DNA binding site [nucleotide binding]; other site 205922015355 putative cAMP binding site [chemical binding]; other site 205922015356 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 205922015357 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 205922015358 active site 205922015359 ribulose/triose binding site [chemical binding]; other site 205922015360 phosphate binding site [ion binding]; other site 205922015361 substrate (anthranilate) binding pocket [chemical binding]; other site 205922015362 product (indole) binding pocket [chemical binding]; other site 205922015363 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 205922015364 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 205922015365 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 205922015366 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 205922015367 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 205922015368 glutamine binding [chemical binding]; other site 205922015369 catalytic triad [active] 205922015370 phosphoglycolate phosphatase; Provisional; Region: PRK13223 205922015371 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 205922015372 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 205922015373 active site 205922015374 catalytic triad [active] 205922015375 oxyanion hole [active] 205922015376 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922015377 anthranilate synthase component I; Provisional; Region: PRK13565 205922015378 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 205922015379 chorismate binding enzyme; Region: Chorismate_bind; cl10555 205922015380 phosphoglycolate phosphatase; Provisional; Region: PRK13223 205922015381 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922015382 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 205922015383 motif II; other site 205922015384 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 205922015385 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 205922015386 substrate binding site [chemical binding]; other site 205922015387 hexamer interface [polypeptide binding]; other site 205922015388 metal binding site [ion binding]; metal-binding site 205922015389 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 205922015390 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 205922015391 active site 205922015392 NAD binding site [chemical binding]; other site 205922015393 metal binding site [ion binding]; metal-binding site 205922015394 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922015395 dimer interface [polypeptide binding]; other site 205922015396 conserved gate region; other site 205922015397 putative PBP binding loops; other site 205922015398 ABC-ATPase subunit interface; other site 205922015399 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 205922015400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922015401 dimer interface [polypeptide binding]; other site 205922015402 conserved gate region; other site 205922015403 putative PBP binding loops; other site 205922015404 ABC-ATPase subunit interface; other site 205922015405 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 205922015406 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 205922015407 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205922015408 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 205922015409 Walker A/P-loop; other site 205922015410 ATP binding site [chemical binding]; other site 205922015411 Q-loop/lid; other site 205922015412 ABC transporter signature motif; other site 205922015413 Walker B; other site 205922015414 D-loop; other site 205922015415 H-loop/switch region; other site 205922015416 TOBE domain; Region: TOBE_2; cl01440 205922015417 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 205922015418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922015419 active site 205922015420 phosphorylation site [posttranslational modification] 205922015421 intermolecular recognition site; other site 205922015422 dimerization interface [polypeptide binding]; other site 205922015423 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 205922015424 DNA binding residues [nucleotide binding] 205922015425 dimerization interface [polypeptide binding]; other site 205922015426 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 205922015427 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922015428 substrate binding pocket [chemical binding]; other site 205922015429 membrane-bound complex binding site; other site 205922015430 hinge residues; other site 205922015431 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 205922015432 PAS domain; Region: PAS_9; pfam13426 205922015433 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 205922015434 PAS fold; Region: PAS_3; pfam08447 205922015435 putative active site [active] 205922015436 heme pocket [chemical binding]; other site 205922015437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 205922015438 Histidine kinase; Region: HisKA_3; pfam07730 205922015439 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922015440 ATP binding site [chemical binding]; other site 205922015441 Mg2+ binding site [ion binding]; other site 205922015442 G-X-G motif; other site 205922015443 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 205922015444 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 205922015445 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 205922015446 putative metal binding site [ion binding]; other site 205922015447 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 205922015448 HSP70 interaction site [polypeptide binding]; other site 205922015449 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 205922015450 Substrate binding site; other site 205922015451 metal-binding site 205922015452 Phosphotransferase enzyme family; Region: APH; pfam01636 205922015453 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 205922015454 active site 205922015455 ATP binding site [chemical binding]; other site 205922015456 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 205922015457 OstA-like protein; Region: OstA; cl00844 205922015458 Organic solvent tolerance protein; Region: OstA_C; pfam04453 205922015459 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 205922015460 SurA N-terminal domain; Region: SurA_N_3; cl07813 205922015461 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922015462 PPIC-type PPIASE domain; Region: Rotamase; cl08278 205922015463 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 205922015464 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 205922015465 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922015466 Protein of unknown function (DUF525); Region: DUF525; cl01119 205922015467 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 205922015468 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 205922015469 active site 205922015470 metal binding site [ion binding]; metal-binding site 205922015471 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 205922015472 active site residue [active] 205922015473 PrkA family serine protein kinase; Provisional; Region: PRK15455 205922015474 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 205922015475 Uncharacterized conserved protein [Function unknown]; Region: COG2718 205922015476 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 205922015477 SpoVR family protein; Provisional; Region: PRK11767 205922015478 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 205922015479 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 205922015480 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 205922015481 active site 205922015482 NTP binding site [chemical binding]; other site 205922015483 metal binding triad [ion binding]; metal-binding site 205922015484 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 205922015485 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922015486 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 205922015487 catalytic center binding site [active] 205922015488 ATP binding site [chemical binding]; other site 205922015489 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 205922015490 active site 205922015491 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 205922015492 UGMP family protein; Validated; Region: PRK09604 205922015493 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 205922015494 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 205922015495 DNA primase, catalytic core; Region: dnaG; TIGR01391 205922015496 CHC2 zinc finger; Region: zf-CHC2; cl15369 205922015497 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 205922015498 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 205922015499 active site 205922015500 metal binding site [ion binding]; metal-binding site 205922015501 interdomain interaction site; other site 205922015502 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 205922015503 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 205922015504 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 205922015505 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 205922015506 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 205922015507 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 205922015508 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922015509 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 205922015510 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 205922015511 DNA binding residues [nucleotide binding] 205922015512 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922015513 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 205922015514 substrate binding pocket [chemical binding]; other site 205922015515 membrane-bound complex binding site; other site 205922015516 hinge residues; other site 205922015517 PAS domain S-box; Region: sensory_box; TIGR00229 205922015518 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 205922015519 putative active site [active] 205922015520 heme pocket [chemical binding]; other site 205922015521 PAS domain S-box; Region: sensory_box; TIGR00229 205922015522 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 205922015523 putative active site [active] 205922015524 heme pocket [chemical binding]; other site 205922015525 PAS domain S-box; Region: sensory_box; TIGR00229 205922015526 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 205922015527 PAS domain; Region: PAS_9; pfam13426 205922015528 putative active site [active] 205922015529 heme pocket [chemical binding]; other site 205922015530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922015531 metal binding site [ion binding]; metal-binding site 205922015532 active site 205922015533 I-site; other site 205922015534 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 205922015535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015536 ATP binding site [chemical binding]; other site 205922015537 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 205922015538 nucleotide binding site/active site [active] 205922015539 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 205922015540 Helix-turn-helix domains; Region: HTH; cl00088 205922015541 AsnC family; Region: AsnC_trans_reg; pfam01037 205922015542 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 205922015543 Predicted amidohydrolase [General function prediction only]; Region: COG0388 205922015544 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 205922015545 putative active site [active] 205922015546 catalytic triad [active] 205922015547 putative dimer interface [polypeptide binding]; other site 205922015548 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 205922015549 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 205922015550 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205922015551 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205922015552 PqqA family; Region: PqqA; cl15372 205922015553 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205922015554 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 205922015555 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 205922015556 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 205922015557 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 205922015558 FeS/SAM binding site; other site 205922015559 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 205922015560 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 205922015561 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922015562 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 205922015563 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 205922015564 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 205922015565 inhibitor-cofactor binding pocket; inhibition site 205922015566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922015567 catalytic residue [active] 205922015568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922015569 Helix-turn-helix domains; Region: HTH; cl00088 205922015570 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 205922015571 dimerization interface [polypeptide binding]; other site 205922015572 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 205922015573 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 205922015574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922015575 active site 205922015576 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 205922015577 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 205922015578 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 205922015579 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 205922015580 FAD binding site [chemical binding]; other site 205922015581 substrate binding site [chemical binding]; other site 205922015582 catalytic residues [active] 205922015583 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 205922015584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922015585 metal binding site [ion binding]; metal-binding site 205922015586 active site 205922015587 I-site; other site 205922015588 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 205922015589 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 205922015590 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 205922015591 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 205922015592 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 205922015593 active site 205922015594 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 205922015595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922015596 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 205922015597 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 205922015598 S-adenosylmethionine binding site [chemical binding]; other site 205922015599 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 205922015600 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 205922015601 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 205922015602 substrate-cofactor binding pocket; other site 205922015603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922015604 catalytic residue [active] 205922015605 biotin synthase; Provisional; Region: PRK15108 205922015606 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 205922015607 FeS/SAM binding site; other site 205922015608 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 205922015609 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 205922015610 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922015611 active site 205922015612 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 205922015613 Helix-turn-helix domains; Region: HTH; cl00088 205922015614 TOBE domain; Region: TOBE_2; cl01440 205922015615 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 205922015616 Phosphotransferase enzyme family; Region: APH; pfam01636 205922015617 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205922015618 active site 205922015619 ATP binding site [chemical binding]; other site 205922015620 Predicted permeases [General function prediction only]; Region: RarD; COG2962 205922015621 EamA-like transporter family; Region: EamA; cl01037 205922015622 EamA-like transporter family; Region: EamA; cl01037 205922015623 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 205922015624 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 205922015625 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 205922015626 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 205922015627 active site 205922015628 Response regulator receiver domain; Region: Response_reg; pfam00072 205922015629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922015630 active site 205922015631 phosphorylation site [posttranslational modification] 205922015632 intermolecular recognition site; other site 205922015633 dimerization interface [polypeptide binding]; other site 205922015634 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 205922015635 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 205922015636 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 205922015637 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205922015638 metal binding triad; other site 205922015639 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 205922015640 active site 205922015641 catalytic site [active] 205922015642 substrate binding site [chemical binding]; other site 205922015643 RNA polymerase sigma factor; Reviewed; Region: PRK12523 205922015644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922015645 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 205922015646 DNA binding residues [nucleotide binding] 205922015647 fec operon regulator FecR; Reviewed; Region: PRK09774 205922015648 FecR protein; Region: FecR; pfam04773 205922015649 Secretin and TonB N terminus short domain; Region: STN; cl06624 205922015650 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 205922015651 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 205922015652 N-terminal plug; other site 205922015653 ligand-binding site [chemical binding]; other site 205922015654 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 205922015655 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 205922015656 putative glutathione S-transferase; Provisional; Region: PRK10357 205922015657 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 205922015658 putative C-terminal domain interface [polypeptide binding]; other site 205922015659 putative GSH binding site (G-site) [chemical binding]; other site 205922015660 putative dimer interface [polypeptide binding]; other site 205922015661 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 205922015662 dimer interface [polypeptide binding]; other site 205922015663 N-terminal domain interface [polypeptide binding]; other site 205922015664 putative substrate binding pocket (H-site) [chemical binding]; other site 205922015665 Inner membrane protein CreD; Region: CreD; cl01844 205922015666 OpgC protein; Region: OpgC_C; cl00792 205922015667 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922015668 sensory histidine kinase CreC; Provisional; Region: PRK11100 205922015669 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 205922015670 dimerization interface [polypeptide binding]; other site 205922015671 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 205922015672 dimer interface [polypeptide binding]; other site 205922015673 phosphorylation site [posttranslational modification] 205922015674 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922015675 ATP binding site [chemical binding]; other site 205922015676 Mg2+ binding site [ion binding]; other site 205922015677 G-X-G motif; other site 205922015678 DNA-binding response regulator CreB; Provisional; Region: PRK11083 205922015679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922015680 active site 205922015681 phosphorylation site [posttranslational modification] 205922015682 intermolecular recognition site; other site 205922015683 dimerization interface [polypeptide binding]; other site 205922015684 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 205922015685 DNA binding site [nucleotide binding] 205922015686 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 205922015687 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 205922015688 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 205922015689 putative acyl-acceptor binding pocket; other site 205922015690 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 205922015691 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922015692 Anti-sigma-K factor rskA; Region: RskA; pfam10099 205922015693 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 205922015694 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 205922015695 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 205922015696 NAD binding site [chemical binding]; other site 205922015697 catalytic Zn binding site [ion binding]; other site 205922015698 structural Zn binding site [ion binding]; other site 205922015699 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 205922015700 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 205922015701 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 205922015702 putative active site [active] 205922015703 putative substrate binding site [chemical binding]; other site 205922015704 putative cosubstrate binding site; other site 205922015705 catalytic site [active] 205922015706 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 205922015707 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 205922015708 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 205922015709 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 205922015710 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 205922015711 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 205922015712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015713 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 205922015714 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 205922015715 dimer interface [polypeptide binding]; other site 205922015716 active site 205922015717 glycine-pyridoxal phosphate binding site [chemical binding]; other site 205922015718 folate binding site [chemical binding]; other site 205922015719 TraX protein; Region: TraX; cl05434 205922015720 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 205922015721 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 205922015722 tetramer interface [polypeptide binding]; other site 205922015723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922015724 catalytic residue [active] 205922015725 short chain dehydrogenase; Provisional; Region: PRK08278 205922015726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015727 NAD(P) binding site [chemical binding]; other site 205922015728 active site 205922015729 Protein of unknown function (DUF796); Region: DUF796; cl01226 205922015730 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 205922015731 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 205922015732 FAD binding pocket [chemical binding]; other site 205922015733 FAD binding motif [chemical binding]; other site 205922015734 phosphate binding motif [ion binding]; other site 205922015735 beta-alpha-beta structure motif; other site 205922015736 NAD binding pocket [chemical binding]; other site 205922015737 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 205922015738 catalytic loop [active] 205922015739 iron binding site [ion binding]; other site 205922015740 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 205922015741 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 205922015742 [2Fe-2S] cluster binding site [ion binding]; other site 205922015743 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 205922015744 putative alpha subunit interface [polypeptide binding]; other site 205922015745 putative active site [active] 205922015746 putative substrate binding site [chemical binding]; other site 205922015747 Fe binding site [ion binding]; other site 205922015748 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 205922015749 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 205922015750 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 205922015751 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922015752 triacylglycerol lipase; Region: PLN02872 205922015753 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 205922015754 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF; cd01985 205922015755 Ligand binding site [chemical binding]; other site 205922015756 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 205922015757 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 205922015758 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 205922015759 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 205922015760 Cysteine-rich domain; Region: CCG; pfam02754 205922015761 Cysteine-rich domain; Region: CCG; pfam02754 205922015762 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 205922015763 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 205922015764 putative active site [active] 205922015765 putative FMN binding site [chemical binding]; other site 205922015766 putative substrate binding site [chemical binding]; other site 205922015767 putative catalytic residue [active] 205922015768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015769 Heme NO binding; Region: HNOB; cl15268 205922015770 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 205922015771 active site 205922015772 dimer interface [polypeptide binding]; other site 205922015773 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 205922015774 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 205922015775 Archaeal ATPase; Region: Arch_ATPase; pfam01637 205922015776 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922015777 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 205922015778 conserved cys residue [active] 205922015779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922015780 NMT1-like family; Region: NMT1_2; cl15260 205922015781 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 205922015782 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 205922015783 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 205922015784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015785 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 205922015786 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 205922015787 active site 205922015788 Protein of unknown function (DUF971); Region: DUF971; cl01414 205922015789 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 205922015790 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 205922015791 substrate binding pocket [chemical binding]; other site 205922015792 active site 205922015793 iron coordination sites [ion binding]; other site 205922015794 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922015795 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 205922015796 conserved cys residue [active] 205922015797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922015798 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 205922015799 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 205922015800 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 205922015801 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 205922015802 NMT1-like family; Region: NMT1_2; cl15260 205922015803 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 205922015804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922015805 dimer interface [polypeptide binding]; other site 205922015806 conserved gate region; other site 205922015807 putative PBP binding loops; other site 205922015808 ABC-ATPase subunit interface; other site 205922015809 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 205922015810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922015811 Walker A/P-loop; other site 205922015812 ATP binding site [chemical binding]; other site 205922015813 Q-loop/lid; other site 205922015814 ABC transporter signature motif; other site 205922015815 Walker B; other site 205922015816 D-loop; other site 205922015817 H-loop/switch region; other site 205922015818 BCCT family transporter; Region: BCCT; cl00569 205922015819 transcriptional regulator BetI; Validated; Region: PRK00767 205922015820 Helix-turn-helix domains; Region: HTH; cl00088 205922015821 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 205922015822 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 205922015823 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 205922015824 tetrameric interface [polypeptide binding]; other site 205922015825 NAD binding site [chemical binding]; other site 205922015826 catalytic residues [active] 205922015827 choline dehydrogenase; Validated; Region: PRK02106 205922015828 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922015829 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 205922015830 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 205922015831 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 205922015832 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 205922015833 putative transporter; Provisional; Region: PRK10504 205922015834 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922015835 putative substrate translocation pore; other site 205922015836 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 205922015837 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 205922015838 ATP binding site [chemical binding]; other site 205922015839 Mg++ binding site [ion binding]; other site 205922015840 motif III; other site 205922015841 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 205922015842 nucleotide binding region [chemical binding]; other site 205922015843 ATP-binding site [chemical binding]; other site 205922015844 DbpA RNA binding domain; Region: DbpA; pfam03880 205922015845 HI0933-like protein; Region: HI0933_like; pfam03486 205922015846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015848 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 205922015849 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 205922015850 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 205922015851 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922015852 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 205922015853 substrate binding pocket [chemical binding]; other site 205922015854 membrane-bound complex binding site; other site 205922015855 hinge residues; other site 205922015856 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 205922015857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922015858 Coenzyme A binding pocket [chemical binding]; other site 205922015859 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 205922015860 Protein of unknown function DUF45; Region: DUF45; cl00636 205922015861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922015862 active site 205922015863 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 205922015864 phosphorylation site [posttranslational modification] 205922015865 intermolecular recognition site; other site 205922015866 dimerization interface [polypeptide binding]; other site 205922015867 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 205922015868 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922015869 metal binding site [ion binding]; metal-binding site 205922015870 active site 205922015871 I-site; other site 205922015872 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 205922015873 Alginate lyase; Region: Alginate_lyase2; pfam08787 205922015874 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 205922015875 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 205922015876 zinc binding site [ion binding]; other site 205922015877 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 205922015878 hypothetical protein; Provisional; Region: PRK08185 205922015879 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 205922015880 intersubunit interface [polypeptide binding]; other site 205922015881 active site 205922015882 zinc binding site [ion binding]; other site 205922015883 Na+ binding site [ion binding]; other site 205922015884 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 205922015885 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 205922015886 Phosphoglycerate kinase; Region: PGK; pfam00162 205922015887 substrate binding site [chemical binding]; other site 205922015888 hinge regions; other site 205922015889 ADP binding site [chemical binding]; other site 205922015890 catalytic site [active] 205922015891 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 205922015892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015893 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 205922015894 transketolase; Reviewed; Region: PRK12753 205922015895 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 205922015896 TPP-binding site [chemical binding]; other site 205922015897 dimer interface [polypeptide binding]; other site 205922015898 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 205922015899 PYR/PP interface [polypeptide binding]; other site 205922015900 dimer interface [polypeptide binding]; other site 205922015901 TPP binding site [chemical binding]; other site 205922015902 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 205922015903 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 205922015904 putative DNA binding site [nucleotide binding]; other site 205922015905 dimerization interface [polypeptide binding]; other site 205922015906 putative Zn2+ binding site [ion binding]; other site 205922015907 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922015908 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 205922015909 S-adenosylmethionine binding site [chemical binding]; other site 205922015910 S-adenosylmethionine synthetase; Validated; Region: PRK05250 205922015911 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 205922015912 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 205922015913 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 205922015914 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 205922015915 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 205922015916 nucleotide binding pocket [chemical binding]; other site 205922015917 K-X-D-G motif; other site 205922015918 catalytic site [active] 205922015919 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 205922015920 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 205922015921 Cytochrome C'; Region: Cytochrom_C_2; cl01610 205922015922 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 205922015923 MltA specific insert domain; Region: MltA; cl08398 205922015924 3D domain; Region: 3D; cl01439 205922015925 MAPEG family; Region: MAPEG; cl09190 205922015926 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 205922015927 EamA-like transporter family; Region: EamA; cl01037 205922015928 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922015929 putative substrate translocation pore; other site 205922015930 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 205922015931 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922015932 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 205922015933 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 205922015934 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 205922015935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015936 oligomerization interface [polypeptide binding]; other site 205922015937 active site 205922015938 NAD+ binding site [chemical binding]; other site 205922015939 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 205922015940 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 205922015941 FAD binding site [chemical binding]; other site 205922015942 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 205922015943 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922015944 substrate binding pocket [chemical binding]; other site 205922015945 membrane-bound complex binding site; other site 205922015946 hinge residues; other site 205922015947 helicase 45; Provisional; Region: PTZ00424 205922015948 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 205922015949 ATP binding site [chemical binding]; other site 205922015950 Mg++ binding site [ion binding]; other site 205922015951 motif III; other site 205922015952 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 205922015953 nucleotide binding region [chemical binding]; other site 205922015954 ATP-binding site [chemical binding]; other site 205922015955 YceI-like domain; Region: YceI; cl01001 205922015956 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 205922015957 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 205922015958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015959 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 205922015960 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 205922015961 inhibitor-cofactor binding pocket; inhibition site 205922015962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922015963 catalytic residue [active] 205922015964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 205922015965 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 205922015966 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 205922015967 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 205922015968 substrate binding pocket [chemical binding]; other site 205922015969 membrane-bound complex binding site; other site 205922015970 hinge residues; other site 205922015971 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 205922015972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922015973 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 205922015974 Helix-turn-helix domains; Region: HTH; cl00088 205922015975 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 205922015976 dimerization interface [polypeptide binding]; other site 205922015977 Haemolysin-III related; Region: HlyIII; cl03831 205922015978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922015979 Helix-turn-helix domains; Region: HTH; cl00088 205922015980 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 205922015981 putative dimerization interface [polypeptide binding]; other site 205922015982 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 205922015983 Malonate transporter MadL subunit; Region: MadL; cl04273 205922015984 Acyl transferase domain; Region: Acyl_transf_1; cl08282 205922015985 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 205922015986 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 205922015987 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922015988 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 205922015989 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 205922015990 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 205922015991 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 205922015992 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 205922015993 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 205922015994 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 205922015995 putative binding surface; other site 205922015996 active site 205922015997 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 205922015998 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 205922015999 putative binding surface; other site 205922016000 active site 205922016001 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 205922016002 putative binding surface; other site 205922016003 active site 205922016004 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 205922016005 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922016006 ATP binding site [chemical binding]; other site 205922016007 Mg2+ binding site [ion binding]; other site 205922016008 G-X-G motif; other site 205922016009 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 205922016010 Response regulator receiver domain; Region: Response_reg; pfam00072 205922016011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922016012 active site 205922016013 phosphorylation site [posttranslational modification] 205922016014 intermolecular recognition site; other site 205922016015 dimerization interface [polypeptide binding]; other site 205922016016 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 205922016017 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 205922016018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922016019 dimer interface [polypeptide binding]; other site 205922016020 putative CheW interface [polypeptide binding]; other site 205922016021 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 205922016022 putative CheA interaction surface; other site 205922016023 Response regulator receiver domain; Region: Response_reg; pfam00072 205922016024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922016025 active site 205922016026 phosphorylation site [posttranslational modification] 205922016027 intermolecular recognition site; other site 205922016028 dimerization interface [polypeptide binding]; other site 205922016029 Response regulator receiver domain; Region: Response_reg; pfam00072 205922016030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922016031 active site 205922016032 phosphorylation site [posttranslational modification] 205922016033 intermolecular recognition site; other site 205922016034 dimerization interface [polypeptide binding]; other site 205922016035 glutathione synthetase; Provisional; Region: PRK05246 205922016036 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 205922016037 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922016038 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922016039 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 205922016040 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 205922016041 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922016042 active site 205922016043 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 205922016044 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 205922016045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016046 dihydroorotase; Validated; Region: pyrC; PRK09357 205922016047 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 205922016048 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 205922016049 active site 205922016050 TM2 domain; Region: TM2; cl00984 205922016051 TM2 domain; Region: TM2; cl00984 205922016052 NlpC/P60 family; Region: NLPC_P60; cl11438 205922016053 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 205922016054 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 205922016055 Walker A motif; other site 205922016056 ATP binding site [chemical binding]; other site 205922016057 Walker B motif; other site 205922016058 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 205922016059 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922016060 catalytic residue [active] 205922016061 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 205922016062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016063 YGGT family; Region: YGGT; cl00508 205922016064 YGGT family; Region: YGGT; cl00508 205922016065 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 205922016066 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 205922016067 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922016068 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 205922016069 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 205922016070 S-adenosylmethionine binding site [chemical binding]; other site 205922016071 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 205922016072 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 205922016073 active site 205922016074 dimerization interface [polypeptide binding]; other site 205922016075 HemN family oxidoreductase; Provisional; Region: PRK05660 205922016076 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 205922016077 FeS/SAM binding site; other site 205922016078 HemN C-terminal domain; Region: HemN_C; pfam06969 205922016079 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 205922016080 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922016081 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 205922016082 ThiS interaction site; other site 205922016083 putative active site [active] 205922016084 tetramer interface [polypeptide binding]; other site 205922016085 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 205922016086 thiS-thiF/thiG interaction site; other site 205922016087 Protein of unknown function (DUF423); Region: DUF423; cl01008 205922016088 Transglycosylase; Region: Transgly; cl07896 205922016089 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 205922016090 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 205922016091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922016092 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 205922016093 DNA binding residues [nucleotide binding] 205922016094 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 205922016095 FtsX-like permease family; Region: FtsX; cl15850 205922016096 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 205922016097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016098 Walker A/P-loop; other site 205922016099 ATP binding site [chemical binding]; other site 205922016100 Q-loop/lid; other site 205922016101 ABC transporter signature motif; other site 205922016102 Walker B; other site 205922016103 D-loop; other site 205922016104 H-loop/switch region; other site 205922016105 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 205922016106 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 205922016107 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 205922016108 P loop; other site 205922016109 GTP binding site [chemical binding]; other site 205922016110 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 205922016111 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 205922016112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205922016113 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 205922016114 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205922016115 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 205922016116 S-adenosylmethionine binding site [chemical binding]; other site 205922016117 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 205922016118 Cupin domain; Region: Cupin_2; cl09118 205922016119 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922016120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922016121 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 205922016122 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 205922016123 active site residue [active] 205922016124 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 205922016125 active site residue [active] 205922016126 Helix-turn-helix domains; Region: HTH; cl00088 205922016127 Bacterial transcriptional repressor; Region: TetR; pfam13972 205922016128 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 205922016129 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 205922016130 NAD(P) binding site [chemical binding]; other site 205922016131 catalytic residues [active] 205922016132 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 205922016133 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 205922016134 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 205922016135 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 205922016136 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 205922016137 active site 205922016138 (T/H)XGH motif; other site 205922016139 ferredoxin; Validated; Region: PRK07118 205922016140 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 205922016141 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 205922016142 DNA binding site [nucleotide binding] 205922016143 catalytic residue [active] 205922016144 H2TH interface [polypeptide binding]; other site 205922016145 putative catalytic residues [active] 205922016146 turnover-facilitating residue; other site 205922016147 intercalation triad [nucleotide binding]; other site 205922016148 8OG recognition residue [nucleotide binding]; other site 205922016149 putative reading head residues; other site 205922016150 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 205922016151 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 205922016152 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 205922016153 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 205922016154 intracellular protease, PfpI family; Region: PfpI; TIGR01382 205922016155 proposed catalytic triad [active] 205922016156 conserved cys residue [active] 205922016157 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 205922016158 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 205922016159 putative RNA binding site [nucleotide binding]; other site 205922016160 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 205922016161 S-adenosylmethionine binding site [chemical binding]; other site 205922016162 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 205922016163 putative FMN binding site [chemical binding]; other site 205922016164 NADPH bind site [chemical binding]; other site 205922016165 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 205922016166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922016167 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 205922016168 putative substrate translocation pore; other site 205922016169 Dehydratase family; Region: ILVD_EDD; cl00340 205922016170 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 205922016171 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 205922016172 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 205922016173 folate binding site [chemical binding]; other site 205922016174 NADP+ binding site [chemical binding]; other site 205922016175 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 205922016176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016177 G1 box; other site 205922016178 GTP/Mg2+ binding site [chemical binding]; other site 205922016179 G2 box; other site 205922016180 Switch I region; other site 205922016181 G3 box; other site 205922016182 Switch II region; other site 205922016183 G4 box; other site 205922016184 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 205922016185 G5 box; other site 205922016186 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922016187 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 205922016188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922016189 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 205922016190 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 205922016191 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 205922016192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016193 dimer interface [polypeptide binding]; other site 205922016194 conserved gate region; other site 205922016195 putative PBP binding loops; other site 205922016196 ABC-ATPase subunit interface; other site 205922016197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016198 dimer interface [polypeptide binding]; other site 205922016199 conserved gate region; other site 205922016200 putative PBP binding loops; other site 205922016201 ABC-ATPase subunit interface; other site 205922016202 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 205922016203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016204 Walker A/P-loop; other site 205922016205 ATP binding site [chemical binding]; other site 205922016206 Q-loop/lid; other site 205922016207 ABC transporter signature motif; other site 205922016208 Walker B; other site 205922016209 D-loop; other site 205922016210 H-loop/switch region; other site 205922016211 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 205922016212 Helix-turn-helix domains; Region: HTH; cl00088 205922016213 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 205922016214 dimerization interface [polypeptide binding]; other site 205922016215 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 205922016216 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 205922016217 metal-binding site [ion binding] 205922016218 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 205922016219 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 205922016220 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 205922016221 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 205922016222 DNA binding residues [nucleotide binding] 205922016223 dimer interface [polypeptide binding]; other site 205922016224 putative metal binding site [ion binding]; other site 205922016225 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 205922016226 dimerization interface [polypeptide binding]; other site 205922016227 active site 205922016228 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 205922016229 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 205922016230 NRDE protein; Region: NRDE; cl01315 205922016231 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 205922016232 GAF domain; Region: GAF; cl15785 205922016233 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 205922016234 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 205922016235 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 205922016236 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 205922016237 putative active site [active] 205922016238 Ap4A binding site [chemical binding]; other site 205922016239 nudix motif; other site 205922016240 putative metal binding site [ion binding]; other site 205922016241 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 205922016242 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 205922016243 motif II; other site 205922016244 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 205922016245 threonine dehydratase; Reviewed; Region: PRK09224 205922016246 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 205922016247 tetramer interface [polypeptide binding]; other site 205922016248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922016249 catalytic residue [active] 205922016250 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 205922016251 putative Ile/Val binding site [chemical binding]; other site 205922016252 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 205922016253 putative Ile/Val binding site [chemical binding]; other site 205922016254 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 205922016255 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205922016256 active site 205922016257 dimer interface [polypeptide binding]; other site 205922016258 SdiA-regulated; Region: SdiA-regulated; pfam06977 205922016259 SdiA-regulated; Region: SdiA-regulated; cd09971 205922016260 putative active site [active] 205922016261 SdiA-regulated; Region: SdiA-regulated; pfam06977 205922016262 SdiA-regulated; Region: SdiA-regulated; cd09971 205922016263 putative active site [active] 205922016264 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 205922016265 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 205922016266 FAD binding domain; Region: FAD_binding_4; pfam01565 205922016267 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 205922016268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016269 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 205922016270 L-serine binding site [chemical binding]; other site 205922016271 ACT domain interface; other site 205922016272 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 205922016273 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 205922016274 substrate binding pocket [chemical binding]; other site 205922016275 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922016276 Protein of unknown function (DUF523); Region: DUF523; cl00733 205922016277 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 205922016278 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 205922016279 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 205922016280 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 205922016281 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 205922016282 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205922016283 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 205922016284 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 205922016285 S-type Pyocin; Region: Pyocin_S; pfam06958 205922016286 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 205922016287 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 205922016288 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 205922016289 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 205922016290 active site 205922016291 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 205922016292 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 205922016293 conserved cys residue [active] 205922016294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922016295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922016296 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922016297 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 205922016298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016299 dimer interface [polypeptide binding]; other site 205922016300 conserved gate region; other site 205922016301 putative PBP binding loops; other site 205922016302 ABC-ATPase subunit interface; other site 205922016303 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 205922016304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016305 dimer interface [polypeptide binding]; other site 205922016306 conserved gate region; other site 205922016307 putative PBP binding loops; other site 205922016308 ABC-ATPase subunit interface; other site 205922016309 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 205922016310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016311 Walker A/P-loop; other site 205922016312 ATP binding site [chemical binding]; other site 205922016313 Q-loop/lid; other site 205922016314 ABC transporter signature motif; other site 205922016315 Walker B; other site 205922016316 D-loop; other site 205922016317 H-loop/switch region; other site 205922016318 TOBE domain; Region: TOBE_2; cl01440 205922016319 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922016320 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 205922016321 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922016322 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 205922016323 putative aminotransferase; Validated; Region: PRK07480 205922016324 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 205922016325 inhibitor-cofactor binding pocket; inhibition site 205922016326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922016327 catalytic residue [active] 205922016328 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922016329 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922016330 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 205922016331 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205922016332 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 205922016333 Helix-turn-helix domains; Region: HTH; cl00088 205922016334 TOBE domain; Region: TOBE_2; cl01440 205922016335 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 205922016336 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 205922016337 Walker A/P-loop; other site 205922016338 ATP binding site [chemical binding]; other site 205922016339 Q-loop/lid; other site 205922016340 ABC transporter signature motif; other site 205922016341 Walker B; other site 205922016342 D-loop; other site 205922016343 H-loop/switch region; other site 205922016344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016345 dimer interface [polypeptide binding]; other site 205922016346 conserved gate region; other site 205922016347 putative PBP binding loops; other site 205922016348 ABC-ATPase subunit interface; other site 205922016349 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 205922016350 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 205922016351 active site 205922016352 dimer interface [polypeptide binding]; other site 205922016353 non-prolyl cis peptide bond; other site 205922016354 insertion regions; other site 205922016355 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 205922016356 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 205922016357 substrate binding pocket [chemical binding]; other site 205922016358 membrane-bound complex binding site; other site 205922016359 hinge residues; other site 205922016360 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 205922016361 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 205922016362 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 205922016363 dimer interface [polypeptide binding]; other site 205922016364 decamer (pentamer of dimers) interface [polypeptide binding]; other site 205922016365 catalytic triad [active] 205922016366 outer membrane porin, OprD family; Region: OprD; pfam03573 205922016367 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 205922016368 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 205922016369 substrate binding pocket [chemical binding]; other site 205922016370 membrane-bound complex binding site; other site 205922016371 hinge residues; other site 205922016372 N-acetylglutamate synthase; Validated; Region: PRK05279 205922016373 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 205922016374 putative feedback inhibition sensing region; other site 205922016375 putative nucleotide binding site [chemical binding]; other site 205922016376 putative substrate binding site [chemical binding]; other site 205922016377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922016378 Coenzyme A binding pocket [chemical binding]; other site 205922016379 acetylornithine deacetylase; Provisional; Region: PRK05111 205922016380 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 205922016381 metal binding site [ion binding]; metal-binding site 205922016382 putative dimer interface [polypeptide binding]; other site 205922016383 Uncharacterized conserved protein [Function unknown]; Region: COG3025 205922016384 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 205922016385 putative active site [active] 205922016386 putative metal binding residues [ion binding]; other site 205922016387 signature motif; other site 205922016388 putative triphosphate binding site [ion binding]; other site 205922016389 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 205922016390 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 205922016391 putative DNA binding site [nucleotide binding]; other site 205922016392 putative Zn2+ binding site [ion binding]; other site 205922016393 AsnC family; Region: AsnC_trans_reg; pfam01037 205922016394 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 205922016395 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 205922016396 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 205922016397 Walker A motif; other site 205922016398 ATP binding site [chemical binding]; other site 205922016399 Walker B motif; other site 205922016400 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 205922016401 glycine dehydrogenase; Provisional; Region: PRK12566 205922016402 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 205922016403 tetramer interface [polypeptide binding]; other site 205922016404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922016405 catalytic residue [active] 205922016406 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 205922016407 tetramer interface [polypeptide binding]; other site 205922016408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922016409 catalytic residue [active] 205922016410 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 205922016411 lipoyl attachment site [posttranslational modification]; other site 205922016412 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 205922016413 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 205922016414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016415 dimer interface [polypeptide binding]; other site 205922016416 conserved gate region; other site 205922016417 putative PBP binding loops; other site 205922016418 ABC-ATPase subunit interface; other site 205922016419 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016420 dimer interface [polypeptide binding]; other site 205922016421 conserved gate region; other site 205922016422 putative PBP binding loops; other site 205922016423 ABC-ATPase subunit interface; other site 205922016424 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 205922016425 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 205922016426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016427 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 205922016428 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 205922016429 CoenzymeA binding site [chemical binding]; other site 205922016430 subunit interaction site [polypeptide binding]; other site 205922016431 PHB binding site; other site 205922016432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016433 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 205922016434 proline aminopeptidase P II; Provisional; Region: PRK10879 205922016435 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 205922016436 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 205922016437 active site 205922016438 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 205922016439 TIGR02449 family protein; Region: TIGR02449 205922016440 Cell division protein ZapA; Region: ZapA; cl01146 205922016441 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 205922016442 EVE domain; Region: EVE; cl00728 205922016443 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 205922016444 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922016445 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205922016446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016447 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 205922016448 Walker A/P-loop; other site 205922016449 ATP binding site [chemical binding]; other site 205922016450 Q-loop/lid; other site 205922016451 ABC transporter signature motif; other site 205922016452 Walker B; other site 205922016453 D-loop; other site 205922016454 H-loop/switch region; other site 205922016455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016456 Walker A/P-loop; other site 205922016457 ATP binding site [chemical binding]; other site 205922016458 Q-loop/lid; other site 205922016459 ABC transporter signature motif; other site 205922016460 Walker B; other site 205922016461 D-loop; other site 205922016462 H-loop/switch region; other site 205922016463 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 205922016464 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 205922016465 ABC-2 type transporter; Region: ABC2_membrane; cl11417 205922016466 ABC-2 type transporter; Region: ABC2_membrane; cl11417 205922016467 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 205922016468 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 205922016469 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 205922016470 NAD(P) binding site [chemical binding]; other site 205922016471 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 205922016472 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922016473 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 205922016474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922016475 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922016476 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 205922016477 putative active site pocket [active] 205922016478 dimerization interface [polypeptide binding]; other site 205922016479 putative catalytic residue [active] 205922016480 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 205922016481 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 205922016482 catalytic loop [active] 205922016483 iron binding site [ion binding]; other site 205922016484 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 205922016485 FAD binding pocket [chemical binding]; other site 205922016486 FAD binding motif [chemical binding]; other site 205922016487 phosphate binding motif [ion binding]; other site 205922016488 beta-alpha-beta structure motif; other site 205922016489 NAD binding pocket [chemical binding]; other site 205922016490 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 205922016491 OpgC protein; Region: OpgC_C; cl00792 205922016492 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922016493 transcription termination factor Rho; Provisional; Region: rho; PRK09376 205922016494 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 205922016495 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 205922016496 RNA binding site [nucleotide binding]; other site 205922016497 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 205922016498 multimer interface [polypeptide binding]; other site 205922016499 Walker A motif; other site 205922016500 ATP binding site [chemical binding]; other site 205922016501 Walker B motif; other site 205922016502 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 205922016503 catalytic residues [active] 205922016504 Transcriptional regulators [Transcription]; Region: FadR; COG2186 205922016505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922016506 DNA-binding site [nucleotide binding]; DNA binding site 205922016507 FCD domain; Region: FCD; cl11656 205922016508 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205922016509 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 205922016510 substrate binding pocket [chemical binding]; other site 205922016511 membrane-bound complex binding site; other site 205922016512 hinge residues; other site 205922016513 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922016514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016515 dimer interface [polypeptide binding]; other site 205922016516 conserved gate region; other site 205922016517 putative PBP binding loops; other site 205922016518 ABC-ATPase subunit interface; other site 205922016519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205922016520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016521 dimer interface [polypeptide binding]; other site 205922016522 conserved gate region; other site 205922016523 putative PBP binding loops; other site 205922016524 ABC-ATPase subunit interface; other site 205922016525 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205922016526 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 205922016527 Walker A/P-loop; other site 205922016528 ATP binding site [chemical binding]; other site 205922016529 Q-loop/lid; other site 205922016530 ABC transporter signature motif; other site 205922016531 Walker B; other site 205922016532 D-loop; other site 205922016533 H-loop/switch region; other site 205922016534 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 205922016535 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 205922016536 polyphosphate kinase; Provisional; Region: PRK05443 205922016537 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 205922016538 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 205922016539 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 205922016540 putative active site [active] 205922016541 catalytic site [active] 205922016542 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 205922016543 putative domain interface [polypeptide binding]; other site 205922016544 putative active site [active] 205922016545 catalytic site [active] 205922016546 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 205922016547 dimer interface [polypeptide binding]; other site 205922016548 active site 205922016549 aspartate-rich active site metal binding site; other site 205922016550 allosteric magnesium binding site [ion binding]; other site 205922016551 Schiff base residues; other site 205922016552 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 205922016553 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 205922016554 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 205922016555 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 205922016556 conserved cys residue [active] 205922016557 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 205922016558 Cytochrome c; Region: Cytochrom_C; cl11414 205922016559 Iron permease FTR1 family; Region: FTR1; cl00475 205922016560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 205922016561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 205922016562 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 205922016563 putative dimer interface [polypeptide binding]; other site 205922016564 TolB amino-terminal domain; Region: TolB_N; cl00639 205922016565 TolB amino-terminal domain; Region: TolB_N; cl00639 205922016566 LysE type translocator; Region: LysE; cl00565 205922016567 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205922016568 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 205922016569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016570 Walker A/P-loop; other site 205922016571 ATP binding site [chemical binding]; other site 205922016572 Q-loop/lid; other site 205922016573 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922016574 ABC transporter signature motif; other site 205922016575 Walker B; other site 205922016576 D-loop; other site 205922016577 ABC transporter; Region: ABC_tran_2; pfam12848 205922016578 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 205922016579 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 205922016580 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 205922016581 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 205922016582 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 205922016583 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 205922016584 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 205922016585 hemY protein; Region: hemY_coli; TIGR00540 205922016586 HemY protein N-terminus; Region: HemY_N; pfam07219 205922016587 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 205922016588 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 205922016589 uroporphyrinogen-III synthase; Validated; Region: PRK05752 205922016590 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 205922016591 active site 205922016592 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 205922016593 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 205922016594 domain interfaces; other site 205922016595 active site 205922016596 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 205922016597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922016598 active site 205922016599 phosphorylation site [posttranslational modification] 205922016600 intermolecular recognition site; other site 205922016601 dimerization interface [polypeptide binding]; other site 205922016602 LytTr DNA-binding domain; Region: LytTR; cl04498 205922016603 argininosuccinate lyase; Provisional; Region: PRK00855 205922016604 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 205922016605 active sites [active] 205922016606 tetramer interface [polypeptide binding]; other site 205922016607 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922016608 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 205922016609 C-terminal domain interface [polypeptide binding]; other site 205922016610 GSH binding site (G-site) [chemical binding]; other site 205922016611 dimer interface [polypeptide binding]; other site 205922016612 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 205922016613 putative N-terminal domain interface [polypeptide binding]; other site 205922016614 putative dimer interface [polypeptide binding]; other site 205922016615 putative substrate binding pocket (H-site) [chemical binding]; other site 205922016616 Phosphate-starvation-inducible E; Region: PsiE; cl01264 205922016617 adenylate cyclase; Provisional; Region: cyaA; PRK09450 205922016618 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 205922016619 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 205922016620 adenylate cyclase; Provisional; Region: cyaA; PRK09450 205922016621 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 205922016622 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205922016623 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 205922016624 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 205922016625 putative iron binding site [ion binding]; other site 205922016626 diaminopimelate decarboxylase; Region: lysA; TIGR01048 205922016627 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 205922016628 active site 205922016629 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922016630 substrate binding site [chemical binding]; other site 205922016631 catalytic residues [active] 205922016632 dimer interface [polypeptide binding]; other site 205922016633 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 205922016634 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 205922016635 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 205922016636 GAF domain; Region: GAF; cl15785 205922016637 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 205922016638 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 205922016639 active site 205922016640 DNA binding site [nucleotide binding] 205922016641 Int/Topo IB signature motif; other site 205922016642 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 205922016643 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 205922016644 motif II; other site 205922016645 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 205922016646 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 205922016647 Nitrogen regulatory protein P-II; Region: P-II; cl00412 205922016648 Nitrogen regulatory protein P-II; Region: P-II; smart00938 205922016649 Membrane fusogenic activity; Region: BMFP; cl01115 205922016650 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 205922016651 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 205922016652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922016653 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 205922016654 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 205922016655 ligand-binding site [chemical binding]; other site 205922016656 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 205922016657 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 205922016658 S-adenosylmethionine binding site [chemical binding]; other site 205922016659 hypothetical protein; Provisional; Region: PRK05849 205922016660 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 205922016661 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 205922016662 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 205922016663 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 205922016664 catalytic triad [active] 205922016665 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 205922016666 active site 205922016667 metal-binding site 205922016668 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 205922016669 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 205922016670 dimerization interface [polypeptide binding]; other site 205922016671 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 205922016672 dimer interface [polypeptide binding]; other site 205922016673 putative CheW interface [polypeptide binding]; other site 205922016674 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205922016675 Helix-turn-helix domains; Region: HTH; cl00088 205922016676 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 205922016677 dimerization interface [polypeptide binding]; other site 205922016678 substrate binding pocket [chemical binding]; other site 205922016679 multidrug efflux protein NorA; Provisional; Region: PRK00187 205922016680 MatE; Region: MatE; cl10513 205922016681 MatE; Region: MatE; cl10513 205922016682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922016683 metal binding site [ion binding]; metal-binding site 205922016684 active site 205922016685 I-site; other site 205922016686 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 205922016687 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 205922016688 Family description; Region: UvrD_C_2; cl15862 205922016689 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922016690 active site 205922016691 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 205922016692 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922016693 Cytochrome c; Region: Cytochrom_C; cl11414 205922016694 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 205922016695 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 205922016696 non-specific DNA binding site [nucleotide binding]; other site 205922016697 salt bridge; other site 205922016698 sequence-specific DNA binding site [nucleotide binding]; other site 205922016699 Cupin domain; Region: Cupin_2; cl09118 205922016700 alanine racemase; Reviewed; Region: dadX; PRK03646 205922016701 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 205922016702 active site 205922016703 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205922016704 substrate binding site [chemical binding]; other site 205922016705 catalytic residues [active] 205922016706 dimer interface [polypeptide binding]; other site 205922016707 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 205922016708 homotrimer interaction site [polypeptide binding]; other site 205922016709 putative active site [active] 205922016710 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 205922016711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016713 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 205922016714 Helix-turn-helix domains; Region: HTH; cl00088 205922016715 AsnC family; Region: AsnC_trans_reg; pfam01037 205922016716 Flagellin N-methylase; Region: FliB; cl00497 205922016717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016718 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 205922016719 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 205922016720 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 205922016721 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922016722 DNA-binding site [nucleotide binding]; DNA binding site 205922016723 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 205922016724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922016725 homodimer interface [polypeptide binding]; other site 205922016726 catalytic residue [active] 205922016727 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 205922016728 PLD-like domain; Region: PLDc_2; pfam13091 205922016729 putative active site [active] 205922016730 catalytic site [active] 205922016731 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 205922016732 putative active site [active] 205922016733 catalytic site [active] 205922016734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922016735 putative substrate translocation pore; other site 205922016736 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205922016737 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 205922016738 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 205922016739 NAD(P) binding site [chemical binding]; other site 205922016740 catalytic residues [active] 205922016741 Cupin domain; Region: Cupin_2; cl09118 205922016742 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 205922016743 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 205922016744 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 205922016745 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 205922016746 peptide binding site [polypeptide binding]; other site 205922016747 hypothetical protein; Reviewed; Region: PRK00024 205922016748 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 205922016749 MPN+ (JAMM) motif; other site 205922016750 Zinc-binding site [ion binding]; other site 205922016751 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 205922016752 Flavoprotein; Region: Flavoprotein; cl08021 205922016753 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 205922016754 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 205922016755 trimer interface [polypeptide binding]; other site 205922016756 active site 205922016757 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 205922016758 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 205922016759 active site 205922016760 substrate binding site [chemical binding]; other site 205922016761 metal binding site [ion binding]; metal-binding site 205922016762 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 205922016763 feedback inhibition sensing region; other site 205922016764 homohexameric interface [polypeptide binding]; other site 205922016765 nucleotide binding site [chemical binding]; other site 205922016766 N-acetyl-L-glutamate binding site [chemical binding]; other site 205922016767 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205922016768 active site 205922016769 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 205922016770 putative active site [active] 205922016771 putative catalytic site [active] 205922016772 putative DNA binding site [nucleotide binding]; other site 205922016773 putative phosphate binding site [ion binding]; other site 205922016774 metal binding site A [ion binding]; metal-binding site 205922016775 putative AP binding site [nucleotide binding]; other site 205922016776 putative metal binding site B [ion binding]; other site 205922016777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 205922016778 ribonuclease PH; Reviewed; Region: rph; PRK00173 205922016779 Ribonuclease PH; Region: RNase_PH_bact; cd11362 205922016780 hexamer interface [polypeptide binding]; other site 205922016781 active site 205922016782 hypothetical protein; Provisional; Region: PRK11820 205922016783 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 205922016784 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 205922016785 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 205922016786 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 205922016787 catalytic site [active] 205922016788 G-X2-G-X-G-K; other site 205922016789 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 205922016790 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 205922016791 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 205922016792 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 205922016793 synthetase active site [active] 205922016794 NTP binding site [chemical binding]; other site 205922016795 metal binding site [ion binding]; metal-binding site 205922016796 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 205922016797 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 205922016798 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 205922016799 homotrimer interaction site [polypeptide binding]; other site 205922016800 putative active site [active] 205922016801 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205922016802 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 205922016803 putative NAD(P) binding site [chemical binding]; other site 205922016804 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205922016805 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205922016806 Gram-negative bacterial tonB protein; Region: TonB; cl10048 205922016807 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 205922016808 Helix-turn-helix domains; Region: HTH; cl00088 205922016809 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 205922016810 dimerization interface [polypeptide binding]; other site 205922016811 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 205922016812 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 205922016813 generic binding surface II; other site 205922016814 ssDNA binding site; other site 205922016815 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 205922016816 ATP binding site [chemical binding]; other site 205922016817 putative Mg++ binding site [ion binding]; other site 205922016818 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 205922016819 nucleotide binding region [chemical binding]; other site 205922016820 ATP-binding site [chemical binding]; other site 205922016821 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 205922016822 putative deacylase active site [active] 205922016823 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 205922016824 SCP-2 sterol transfer family; Region: SCP2; cl01225 205922016825 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 205922016826 TPR repeat; Region: TPR_11; pfam13414 205922016827 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 205922016828 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 205922016829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922016830 TIGR01777 family protein; Region: yfcH 205922016831 NAD(P) binding site [chemical binding]; other site 205922016832 active site 205922016833 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922016834 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922016835 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922016836 Protein kinase domain; Region: Pkinase; pfam00069 205922016837 Catalytic domain of Protein Kinases; Region: PKc; cd00180 205922016838 active site 205922016839 ATP binding site [chemical binding]; other site 205922016840 substrate binding site [chemical binding]; other site 205922016841 activation loop (A-loop); other site 205922016842 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 205922016843 Protein phosphatase 2C; Region: PP2C; pfam00481 205922016844 active site 205922016845 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 205922016846 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 205922016847 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 205922016848 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 205922016849 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 205922016850 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 205922016851 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 205922016852 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 205922016853 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 205922016854 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 205922016855 phosphopeptide binding site; other site 205922016856 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 205922016857 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 205922016858 Walker A motif; other site 205922016859 ATP binding site [chemical binding]; other site 205922016860 Walker B motif; other site 205922016861 arginine finger; other site 205922016862 Helix-turn-helix domains; Region: HTH; cl00088 205922016863 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 205922016864 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 205922016865 Walker A motif; other site 205922016866 ATP binding site [chemical binding]; other site 205922016867 Walker B motif; other site 205922016868 arginine finger; other site 205922016869 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 205922016870 Walker A motif; other site 205922016871 ATP binding site [chemical binding]; other site 205922016872 Walker B motif; other site 205922016873 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 205922016874 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 205922016875 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 205922016876 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 205922016877 PAAR motif; Region: PAAR_motif; cl15808 205922016878 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 205922016879 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 205922016880 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 205922016881 Protein of unknown function (DUF877); Region: DUF877; pfam05943 205922016882 Protein of unknown function (DUF770); Region: DUF770; cl01402 205922016883 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 205922016884 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 205922016885 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 205922016886 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 205922016887 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 205922016888 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 205922016889 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 205922016890 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 205922016891 IHF dimer interface [polypeptide binding]; other site 205922016892 IHF - DNA interface [nucleotide binding]; other site 205922016893 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 205922016894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922016895 Rubredoxin [Energy production and conversion]; Region: COG1773 205922016896 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 205922016897 iron binding site [ion binding]; other site 205922016898 UTRA domain; Region: UTRA; cl01230 205922016899 UbiA prenyltransferase family; Region: UbiA; cl00337 205922016900 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 205922016901 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 205922016902 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 205922016903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922016904 active site 205922016905 phosphorylation site [posttranslational modification] 205922016906 intermolecular recognition site; other site 205922016907 dimerization interface [polypeptide binding]; other site 205922016908 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 205922016909 DNA binding site [nucleotide binding] 205922016910 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 205922016911 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 205922016912 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 205922016913 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 205922016914 dimer interface [polypeptide binding]; other site 205922016915 phosphorylation site [posttranslational modification] 205922016916 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922016917 ATP binding site [chemical binding]; other site 205922016918 Mg2+ binding site [ion binding]; other site 205922016919 G-X-G motif; other site 205922016920 Domain of unknown function DUF21; Region: DUF21; pfam01595 205922016921 gliding motility-associated protein GldE; Region: GldE; TIGR03520 205922016922 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 205922016923 Transporter associated domain; Region: CorC_HlyC; cl08393 205922016924 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 205922016925 Peptidase family M23; Region: Peptidase_M23; pfam01551 205922016926 Response regulator receiver domain; Region: Response_reg; pfam00072 205922016927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922016928 active site 205922016929 phosphorylation site [posttranslational modification] 205922016930 intermolecular recognition site; other site 205922016931 dimerization interface [polypeptide binding]; other site 205922016932 transcriptional regulator PhoU; Provisional; Region: PRK11115 205922016933 PhoU domain; Region: PhoU; pfam01895 205922016934 PhoU domain; Region: PhoU; pfam01895 205922016935 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 205922016936 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 205922016937 Walker A/P-loop; other site 205922016938 ATP binding site [chemical binding]; other site 205922016939 Q-loop/lid; other site 205922016940 ABC transporter signature motif; other site 205922016941 Walker B; other site 205922016942 D-loop; other site 205922016943 H-loop/switch region; other site 205922016944 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 205922016945 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205922016946 dimer interface [polypeptide binding]; other site 205922016947 conserved gate region; other site 205922016948 putative PBP binding loops; other site 205922016949 ABC-ATPase subunit interface; other site 205922016950 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 205922016951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 205922016952 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 205922016953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922016954 metabolite-proton symporter; Region: 2A0106; TIGR00883 205922016955 putative substrate translocation pore; other site 205922016956 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 205922016957 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 205922016958 active site 205922016959 phosphate binding residues; other site 205922016960 catalytic residues [active] 205922016961 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 205922016962 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 205922016963 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 205922016964 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922016965 AIR carboxylase; Region: AIRC; cl00310 205922016966 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 205922016967 active site 205922016968 cell density-dependent motility repressor; Provisional; Region: PRK10082 205922016969 Helix-turn-helix domains; Region: HTH; cl00088 205922016970 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 205922016971 dimerization interface [polypeptide binding]; other site 205922016972 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 205922016973 Aspartase; Region: Aspartase; cd01357 205922016974 active sites [active] 205922016975 tetramer interface [polypeptide binding]; other site 205922016976 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 205922016977 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 205922016978 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 205922016979 active site 205922016980 homodimer interface [polypeptide binding]; other site 205922016981 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 205922016982 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205922016983 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 205922016984 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 205922016985 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 205922016986 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 205922016987 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 205922016988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205922016989 DNA-binding site [nucleotide binding]; DNA binding site 205922016990 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 205922016991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205922016992 homodimer interface [polypeptide binding]; other site 205922016993 catalytic residue [active] 205922016994 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205922016995 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 205922016996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 205922016997 Coenzyme A binding pocket [chemical binding]; other site 205922016998 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 205922016999 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 205922017000 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 205922017001 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922017002 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 205922017003 pyruvate carboxylase subunit B; Validated; Region: PRK09282 205922017004 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 205922017005 active site 205922017006 catalytic residues [active] 205922017007 metal binding site [ion binding]; metal-binding site 205922017008 homodimer binding site [polypeptide binding]; other site 205922017009 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 205922017010 carboxyltransferase (CT) interaction site; other site 205922017011 biotinylation site [posttranslational modification]; other site 205922017012 pyruvate carboxylase subunit A; Validated; Region: PRK07178 205922017013 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205922017014 ATP-grasp domain; Region: ATP-grasp_4; cl03087 205922017015 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 205922017016 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205922017017 Helix-turn-helix domains; Region: HTH; cl00088 205922017018 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 205922017019 putative dimerization interface [polypeptide binding]; other site 205922017020 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 205922017021 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 205922017022 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 205922017023 putative active site [active] 205922017024 PAS fold; Region: PAS_3; pfam08447 205922017025 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 205922017026 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 205922017027 PAS domain; Region: PAS_9; pfam13426 205922017028 putative active site [active] 205922017029 heme pocket [chemical binding]; other site 205922017030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 205922017031 metal binding site [ion binding]; metal-binding site 205922017032 active site 205922017033 I-site; other site 205922017034 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 205922017035 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 205922017036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922017037 Family description; Region: UvrD_C_2; cl15862 205922017038 EamA-like transporter family; Region: EamA; cl01037 205922017039 Tim44-like domain; Region: Tim44; cl09208 205922017040 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 205922017041 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 205922017042 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 205922017043 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 205922017044 pyridoxamine kinase; Validated; Region: PRK05756 205922017045 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 205922017046 pyridoxal binding site [chemical binding]; other site 205922017047 dimer interface [polypeptide binding]; other site 205922017048 ATP binding site [chemical binding]; other site 205922017049 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 205922017050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922017051 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 205922017052 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 205922017053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922017054 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 205922017055 AMIN domain; Region: AMIN; pfam11741 205922017056 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 205922017057 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 205922017058 active site 205922017059 metal binding site [ion binding]; metal-binding site 205922017060 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 205922017061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922017062 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 205922017063 Walker A/P-loop; other site 205922017064 ATP binding site [chemical binding]; other site 205922017065 Q-loop/lid; other site 205922017066 ABC transporter signature motif; other site 205922017067 Walker B; other site 205922017068 D-loop; other site 205922017069 H-loop/switch region; other site 205922017070 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 205922017071 ABC-ATPase subunit interface; other site 205922017072 dimer interface [polypeptide binding]; other site 205922017073 putative PBP binding regions; other site 205922017074 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 205922017075 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 205922017076 metal binding site [ion binding]; metal-binding site 205922017077 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 205922017078 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 205922017079 trimer interface [polypeptide binding]; other site 205922017080 active site 205922017081 dihydroorotase; Reviewed; Region: PRK09236 205922017082 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 205922017083 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 205922017084 active site 205922017085 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 205922017086 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 205922017087 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 205922017088 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 205922017089 putative active site [active] 205922017090 catalytic site [active] 205922017091 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 205922017092 putative active site [active] 205922017093 catalytic site [active] 205922017094 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 205922017095 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 205922017096 S-adenosylmethionine binding site [chemical binding]; other site 205922017097 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 205922017098 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 205922017099 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 205922017100 HflK protein; Region: hflK; TIGR01933 205922017101 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 205922017102 HflC protein; Region: hflC; TIGR01932 205922017103 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 205922017104 HflK protein; Region: hflK; TIGR01933 205922017105 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 205922017106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205922017107 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205922017108 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 205922017109 Helix-turn-helix domains; Region: HTH; cl00088 205922017110 AsnC family; Region: AsnC_trans_reg; pfam01037 205922017111 LysE type translocator; Region: LysE; cl00565 205922017112 TPR repeat; Region: TPR_11; pfam13414 205922017113 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 205922017114 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922017115 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 205922017116 OpgC protein; Region: OpgC_C; cl00792 205922017117 Acyltransferase family; Region: Acyl_transf_3; pfam01757 205922017118 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 205922017119 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205922017120 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 205922017121 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 205922017122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 205922017123 active site 205922017124 phosphorylation site [posttranslational modification] 205922017125 dimerization interface [polypeptide binding]; other site 205922017126 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 205922017127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922017128 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 205922017129 NAD(P) binding site [chemical binding]; other site 205922017130 active site 205922017131 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 205922017132 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 205922017133 NADP-binding site; other site 205922017134 homotetramer interface [polypeptide binding]; other site 205922017135 substrate binding site [chemical binding]; other site 205922017136 homodimer interface [polypeptide binding]; other site 205922017137 active site 205922017138 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 205922017139 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 205922017140 Substrate binding site; other site 205922017141 Cupin domain; Region: Cupin_2; cl09118 205922017142 ABC-2 type transporter; Region: ABC2_membrane; cl11417 205922017143 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 205922017144 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 205922017145 Walker A/P-loop; other site 205922017146 ATP binding site [chemical binding]; other site 205922017147 Q-loop/lid; other site 205922017148 ABC transporter signature motif; other site 205922017149 Walker B; other site 205922017150 D-loop; other site 205922017151 H-loop/switch region; other site 205922017152 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 205922017153 putative carbohydrate binding site [chemical binding]; other site 205922017154 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 205922017155 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922017156 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 205922017157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205922017158 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 205922017159 putative ADP-binding pocket [chemical binding]; other site 205922017160 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205922017161 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205922017162 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 205922017163 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 205922017164 FAD binding pocket [chemical binding]; other site 205922017165 FAD binding motif [chemical binding]; other site 205922017166 phosphate binding motif [ion binding]; other site 205922017167 beta-alpha-beta structure motif; other site 205922017168 NAD binding pocket [chemical binding]; other site 205922017169 Heme binding pocket [chemical binding]; other site 205922017170 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 205922017171 catalytic loop [active] 205922017172 iron binding site [ion binding]; other site 205922017173 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 205922017174 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 205922017175 putative C-terminal domain interface [polypeptide binding]; other site 205922017176 putative GSH binding site (G-site) [chemical binding]; other site 205922017177 putative dimer interface [polypeptide binding]; other site 205922017178 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 205922017179 putative N-terminal domain interface [polypeptide binding]; other site 205922017180 putative dimer interface [polypeptide binding]; other site 205922017181 putative substrate binding pocket (H-site) [chemical binding]; other site 205922017182 Helix-turn-helix domains; Region: HTH; cl00088 205922017183 LysR family transcriptional regulator; Provisional; Region: PRK14997 205922017184 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 205922017185 putative effector binding pocket; other site 205922017186 putative dimerization interface [polypeptide binding]; other site 205922017187 cyclase homology domain; Region: CHD; cd07302 205922017188 nucleotidyl binding site; other site 205922017189 metal binding site [ion binding]; metal-binding site 205922017190 dimer interface [polypeptide binding]; other site 205922017191 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 205922017192 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 205922017193 Walker A motif; other site 205922017194 ATP binding site [chemical binding]; other site 205922017195 Walker B motif; other site 205922017196 arginine finger; other site 205922017197 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 205922017198 active site 205922017199 catalytic triad [active] 205922017200 Peptidase S8 family domain, uncharacterized subfamily 12; Region: Peptidases_S8_12; cd07480 205922017201 active site 205922017202 catalytic triad [active] 205922017203 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 205922017204 Epoxide hydrolase N terminus; Region: EHN; pfam06441 205922017205 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 205922017206 OsmC-like protein; Region: OsmC; cl00767 205922017207 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 205922017208 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922017209 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 205922017210 dimer interface [polypeptide binding]; other site 205922017211 phosphorylation site [posttranslational modification] 205922017212 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922017213 Mg2+ binding site [ion binding]; other site 205922017214 G-X-G motif; other site 205922017215 osmolarity response regulator; Provisional; Region: ompR; PRK09468 205922017216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922017217 active site 205922017218 phosphorylation site [posttranslational modification] 205922017219 intermolecular recognition site; other site 205922017220 dimerization interface [polypeptide binding]; other site 205922017221 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 205922017222 DNA binding site [nucleotide binding] 205922017223 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 205922017224 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 205922017225 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 205922017226 catalytic residues [active] 205922017227 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 205922017228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 205922017229 active site 205922017230 phosphorylation site [posttranslational modification] 205922017231 intermolecular recognition site; other site 205922017232 dimerization interface [polypeptide binding]; other site 205922017233 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 205922017234 DNA binding residues [nucleotide binding] 205922017235 dimerization interface [polypeptide binding]; other site 205922017236 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 205922017237 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 205922017238 putative active site [active] 205922017239 heme pocket [chemical binding]; other site 205922017240 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 205922017241 putative active site [active] 205922017242 heme pocket [chemical binding]; other site 205922017243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205922017244 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 205922017245 Histidine kinase-like ATPases; This family includes several ATP-binding 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 205922017246 ATP binding site [chemical binding]; other site 205922017247 Mg2+ binding site [ion binding]; other site 205922017248 G-X-G motif; other site 205922017249 benzoate transport; Region: 2A0115; TIGR00895 205922017250 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 205922017251 putative substrate translocation pore; other site 205922017252 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 205922017253 DNA binding site [nucleotide binding] 205922017254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 205922017255 Predicted ATPase [General function prediction only]; Region: COG3903 205922017256 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 205922017257 Helix-turn-helix domain; Region: HTH_18; pfam12833 205922017258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205922017259 RNA polymerase sigma factor; Provisional; Region: PRK12536 205922017260 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205922017261 OsmC-like protein; Region: OsmC; cl00767 205922017262 TniQ; Region: TniQ; pfam06527 205922017263 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 205922017264 AAA domain; Region: AAA_22; pfam13401 205922017265 Integrase core domain; Region: rve; cl01316 205922017266 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 205922017267 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 205922017268 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 205922017269 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 205922017270 glutaminase active site [active] 205922017271 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 205922017272 dimer interface [polypeptide binding]; other site 205922017273 active site 205922017274 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 205922017275 dimer interface [polypeptide binding]; other site 205922017276 active site 205922017277 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 205922017278 Helix-turn-helix domains; Region: HTH; cl00088 205922017279 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 205922017280 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 205922017281 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 205922017282 Substrate binding site; other site 205922017283 Mg++ binding site; other site 205922017284 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 205922017285 active site 205922017286 substrate binding site [chemical binding]; other site 205922017287 CoA binding site [chemical binding]; other site 205922017288 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 205922017289 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 205922017290 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 205922017291 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 205922017292 alpha subunit interaction interface [polypeptide binding]; other site 205922017293 Walker A motif; other site 205922017294 ATP binding site [chemical binding]; other site 205922017295 Walker B motif; other site 205922017296 inhibitor binding site; inhibition site 205922017297 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 205922017298 ATP synthase; Region: ATP-synt; cl00365 205922017299 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 205922017300 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 205922017301 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 205922017302 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 205922017303 beta subunit interaction interface [polypeptide binding]; other site 205922017304 Walker A motif; other site 205922017305 ATP binding site [chemical binding]; other site 205922017306 Walker B motif; other site 205922017307 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 205922017308 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 205922017309 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 205922017310 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 205922017311 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 205922017312 ATP synthase subunit C; Region: ATP-synt_C; cl00466 205922017313 ATP synthase A chain; Region: ATP-synt_A; cl00413 205922017314 ATP synthase I chain; Region: ATP_synt_I; cl09170 205922017315 ParB-like partition proteins; Region: parB_part; TIGR00180 205922017316 ParB-like nuclease domain; Region: ParBc; cl02129 205922017317 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205922017318 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 205922017319 P-loop; other site 205922017320 Magnesium ion binding site [ion binding]; other site 205922017321 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 205922017322 Magnesium ion binding site [ion binding]; other site 205922017323 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 205922017324 S-adenosylmethionine binding site [chemical binding]; other site 205922017325 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 205922017326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922017327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205922017328 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 205922017329 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 205922017330 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 205922017331 trmE is a tRNA modification GTPase; Region: trmE; cd04164 205922017332 G1 box; other site 205922017333 GTP/Mg2+ binding site [chemical binding]; other site 205922017334 Switch I region; other site 205922017335 G2 box; other site 205922017336 Switch II region; other site 205922017337 G3 box; other site 205922017338 G4 box; other site 205922017339 G5 box; other site 205922017340 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 205922017341 membrane protein insertase; Provisional; Region: PRK01318 205922017342 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 205922017343 Haemolytic domain; Region: Haemolytic; cl00506 205922017344 Ribonuclease P; Region: Ribonuclease_P; cl00457