-- dump date 20140620_063717 -- class Genbank::misc_feature -- table misc_feature_note -- id note 318161000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 318161000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 318161000003 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 318161000004 Walker A motif; other site 318161000005 ATP binding site [chemical binding]; other site 318161000006 Walker B motif; other site 318161000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 318161000008 arginine finger; other site 318161000009 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 318161000010 DnaA box-binding interface [nucleotide binding]; other site 318161000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 318161000012 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 318161000013 putative DNA binding surface [nucleotide binding]; other site 318161000014 dimer interface [polypeptide binding]; other site 318161000015 beta-clamp/clamp loader binding surface; other site 318161000016 beta-clamp/translesion DNA polymerase binding surface; other site 318161000017 recombination protein F; Reviewed; Region: recF; PRK00064 318161000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161000019 Walker A/P-loop; other site 318161000020 ATP binding site [chemical binding]; other site 318161000021 Q-loop/lid; other site 318161000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161000023 ABC transporter signature motif; other site 318161000024 Walker B; other site 318161000025 D-loop; other site 318161000026 H-loop/switch region; other site 318161000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 318161000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161000029 Mg2+ binding site [ion binding]; other site 318161000030 G-X-G motif; other site 318161000031 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 318161000032 anchoring element; other site 318161000033 dimer interface [polypeptide binding]; other site 318161000034 ATP binding site [chemical binding]; other site 318161000035 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 318161000036 active site 318161000037 putative metal-binding site [ion binding]; other site 318161000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318161000039 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 318161000040 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 318161000041 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 318161000042 Calx-beta domain; Region: Calx-beta; cl02522 318161000043 Domains in Na-Ca exchangers and integrin-beta4; Region: Calx_beta; smart00237 318161000044 Domain of unknown function (DUF3869); Region: DUF3869; pfam12985 318161000045 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 318161000046 DALR anticodon binding domain; Region: DALR_1; pfam05746 318161000047 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 318161000048 dimer interface [polypeptide binding]; other site 318161000049 motif 1; other site 318161000050 active site 318161000051 motif 2; other site 318161000052 motif 3; other site 318161000053 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 318161000054 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161000055 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318161000056 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318161000057 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 318161000058 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; cd01292 318161000059 active site 318161000060 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 318161000061 MOSC domain; Region: MOSC; pfam03473 318161000062 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 318161000063 CPxP motif; other site 318161000064 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 318161000065 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 318161000066 dimer interface [polypeptide binding]; other site 318161000067 active site 318161000068 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 318161000069 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 318161000070 substrate binding site [chemical binding]; other site 318161000071 oxyanion hole (OAH) forming residues; other site 318161000072 trimer interface [polypeptide binding]; other site 318161000073 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 318161000074 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318161000075 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318161000076 proline dipeptidase; Provisional; Region: PRK13607 318161000077 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 318161000078 active site 318161000079 hypothetical protein; Provisional; Region: PRK11568 318161000080 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 318161000081 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 318161000082 Cation transport protein; Region: TrkH; cl17365 318161000083 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 318161000084 Flavodoxin domain; Region: Flavodoxin_5; cl17428 318161000085 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 318161000086 dimerization interface [polypeptide binding]; other site 318161000087 putative DNA binding site [nucleotide binding]; other site 318161000088 putative Zn2+ binding site [ion binding]; other site 318161000089 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 318161000090 TrkA-N domain; Region: TrkA_N; pfam02254 318161000091 TrkA-C domain; Region: TrkA_C; pfam02080 318161000092 TrkA-N domain; Region: TrkA_N; pfam02254 318161000093 TrkA-C domain; Region: TrkA_C; pfam02080 318161000094 16S rRNA methyltransferase B; Provisional; Region: PRK10901 318161000095 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 318161000096 putative RNA binding site [nucleotide binding]; other site 318161000097 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161000098 S-adenosylmethionine binding site [chemical binding]; other site 318161000099 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 318161000100 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 318161000101 putative active site [active] 318161000102 substrate binding site [chemical binding]; other site 318161000103 putative cosubstrate binding site; other site 318161000104 catalytic site [active] 318161000105 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 318161000106 substrate binding site [chemical binding]; other site 318161000107 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 318161000108 active site 318161000109 catalytic residues [active] 318161000110 metal binding site [ion binding]; metal-binding site 318161000111 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 318161000112 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161000113 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 318161000114 DNA protecting protein DprA; Region: dprA; TIGR00732 318161000115 hypothetical protein; Validated; Region: PRK03430 318161000116 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318161000117 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 318161000118 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318161000119 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318161000120 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318161000121 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 318161000122 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 318161000123 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 318161000124 apolar tunnel; other site 318161000125 heme binding site [chemical binding]; other site 318161000126 dimerization interface [polypeptide binding]; other site 318161000127 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318161000128 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 318161000129 active site 318161000130 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 318161000131 active site 318161000132 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 318161000133 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 318161000134 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 318161000135 shikimate binding site; other site 318161000136 NAD(P) binding site [chemical binding]; other site 318161000137 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 318161000138 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 318161000139 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 318161000140 trimer interface [polypeptide binding]; other site 318161000141 putative metal binding site [ion binding]; other site 318161000142 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161000143 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161000144 DNA-binding interface [nucleotide binding]; DNA binding site 318161000145 Integrase core domain; Region: rve; pfam00665 318161000146 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161000147 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161000148 DNA-binding interface [nucleotide binding]; DNA binding site 318161000149 Integrase core domain; Region: rve; pfam00665 318161000150 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 318161000151 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 318161000152 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 318161000153 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 318161000154 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 318161000155 FHIPEP family; Region: FHIPEP; pfam00771 318161000156 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 318161000157 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 318161000158 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161000159 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161000160 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 318161000161 Flagellar L-ring protein; Region: FlgH; cl17277 318161000162 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 318161000163 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 318161000164 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 318161000165 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161000166 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 318161000167 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 318161000168 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 318161000169 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 318161000170 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 318161000171 Walker A motif; other site 318161000172 ATP binding site [chemical binding]; other site 318161000173 Walker B motif; other site 318161000174 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 318161000175 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 318161000176 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161000177 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 318161000178 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 318161000179 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 318161000180 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 318161000181 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 318161000182 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 318161000183 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 318161000184 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 318161000185 Walker A/P-loop; other site 318161000186 ATP binding site [chemical binding]; other site 318161000187 Q-loop/lid; other site 318161000188 ABC transporter signature motif; other site 318161000189 Walker B; other site 318161000190 D-loop; other site 318161000191 H-loop/switch region; other site 318161000192 TAP-like protein; Region: Abhydrolase_4; pfam08386 318161000193 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318161000194 Predicted transcriptional regulators [Transcription]; Region: COG1725 318161000195 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318161000196 DNA-binding site [nucleotide binding]; DNA binding site 318161000197 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 318161000198 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318161000199 Walker A/P-loop; other site 318161000200 ATP binding site [chemical binding]; other site 318161000201 Q-loop/lid; other site 318161000202 ABC transporter signature motif; other site 318161000203 Walker B; other site 318161000204 D-loop; other site 318161000205 H-loop/switch region; other site 318161000206 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318161000207 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 318161000208 acyl-activating enzyme (AAE) consensus motif; other site 318161000209 putative AMP binding site [chemical binding]; other site 318161000210 putative active site [active] 318161000211 putative CoA binding site [chemical binding]; other site 318161000212 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 318161000213 active site 318161000214 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 318161000215 active site 318161000216 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 318161000217 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161000218 substrate binding pocket [chemical binding]; other site 318161000219 membrane-bound complex binding site; other site 318161000220 hinge residues; other site 318161000221 PAS domain S-box; Region: sensory_box; TIGR00229 318161000222 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 318161000223 putative active site [active] 318161000224 heme pocket [chemical binding]; other site 318161000225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161000226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161000227 metal binding site [ion binding]; metal-binding site 318161000228 active site 318161000229 I-site; other site 318161000230 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 318161000231 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 318161000232 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 318161000233 motif II; other site 318161000234 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 318161000235 catalytic motif [active] 318161000236 Zn binding site [ion binding]; other site 318161000237 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 318161000238 imidazolonepropionase; Validated; Region: PRK09356 318161000239 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 318161000240 active site 318161000241 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 318161000242 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318161000243 DNA-binding site [nucleotide binding]; DNA binding site 318161000244 UTRA domain; Region: UTRA; pfam07702 318161000245 urocanate hydratase; Provisional; Region: PRK05414 318161000246 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 318161000247 active sites [active] 318161000248 tetramer interface [polypeptide binding]; other site 318161000249 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 318161000250 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318161000251 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318161000252 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 318161000253 active site 318161000254 metal binding site [ion binding]; metal-binding site 318161000255 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318161000256 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 318161000257 putative acyl-acceptor binding pocket; other site 318161000258 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 318161000259 SnoaL-like domain; Region: SnoaL_3; pfam13474 318161000260 NRDE protein; Region: NRDE; cl01315 318161000261 MarC family integral membrane protein; Region: MarC; cl00919 318161000262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 318161000263 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 318161000264 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 318161000265 Chorismate lyase; Region: Chor_lyase; cl01230 318161000266 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 318161000267 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 318161000268 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161000269 S-adenosylmethionine binding site [chemical binding]; other site 318161000270 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 318161000271 substrate binding site [chemical binding]; other site 318161000272 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318161000273 ATP binding site [chemical binding]; other site 318161000274 Cache domain; Region: Cache_1; pfam02743 318161000275 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 318161000276 dimerization interface [polypeptide binding]; other site 318161000277 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161000278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161000279 dimer interface [polypeptide binding]; other site 318161000280 putative CheW interface [polypeptide binding]; other site 318161000281 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 318161000282 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318161000283 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 318161000284 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 318161000285 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 318161000286 FeS/SAM binding site; other site 318161000287 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 318161000288 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 318161000289 trimer interface [polypeptide binding]; other site 318161000290 dimer interface [polypeptide binding]; other site 318161000291 putative active site [active] 318161000292 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 318161000293 MoaE interaction surface [polypeptide binding]; other site 318161000294 MoeB interaction surface [polypeptide binding]; other site 318161000295 thiocarboxylated glycine; other site 318161000296 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 318161000297 MoaE homodimer interface [polypeptide binding]; other site 318161000298 MoaD interaction [polypeptide binding]; other site 318161000299 active site residues [active] 318161000300 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 318161000301 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 318161000302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161000303 putative PBP binding loops; other site 318161000304 ABC-ATPase subunit interface; other site 318161000305 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 318161000306 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 318161000307 Walker A/P-loop; other site 318161000308 ATP binding site [chemical binding]; other site 318161000309 Q-loop/lid; other site 318161000310 ABC transporter signature motif; other site 318161000311 Walker B; other site 318161000312 D-loop; other site 318161000313 H-loop/switch region; other site 318161000314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161000315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161000316 active site 318161000317 phosphorylation site [posttranslational modification] 318161000318 intermolecular recognition site; other site 318161000319 dimerization interface [polypeptide binding]; other site 318161000320 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 318161000321 DNA binding site [nucleotide binding] 318161000322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161000323 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 318161000324 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 318161000325 dimer interface [polypeptide binding]; other site 318161000326 phosphorylation site [posttranslational modification] 318161000327 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161000328 ATP binding site [chemical binding]; other site 318161000329 Mg2+ binding site [ion binding]; other site 318161000330 G-X-G motif; other site 318161000331 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318161000332 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161000333 active site 318161000334 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 318161000335 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 318161000336 ATP binding site [chemical binding]; other site 318161000337 substrate interface [chemical binding]; other site 318161000338 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 318161000339 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 318161000340 dimer interface [polypeptide binding]; other site 318161000341 putative functional site; other site 318161000342 putative MPT binding site; other site 318161000343 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 318161000344 GIY-YIG motif/motif A; other site 318161000345 putative active site [active] 318161000346 putative metal binding site [ion binding]; other site 318161000347 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161000348 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 318161000349 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 318161000350 active site 318161000351 substrate-binding site [chemical binding]; other site 318161000352 metal-binding site [ion binding] 318161000353 ATP binding site [chemical binding]; other site 318161000354 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 318161000355 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 318161000356 dimerization interface [polypeptide binding]; other site 318161000357 domain crossover interface; other site 318161000358 redox-dependent activation switch; other site 318161000359 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 318161000360 RNA binding surface [nucleotide binding]; other site 318161000361 putative type II secretion protein GspC; Provisional; Region: PRK09681 318161000362 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 318161000363 type II secretion system protein D; Region: type_II_gspD; TIGR02517 318161000364 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318161000365 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318161000366 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318161000367 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318161000368 type II secretion system protein E; Region: type_II_gspE; TIGR02533 318161000369 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 318161000370 Walker A motif; other site 318161000371 ATP binding site [chemical binding]; other site 318161000372 Walker B motif; other site 318161000373 type II secretion system protein F; Region: GspF; TIGR02120 318161000374 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318161000375 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318161000376 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 318161000377 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 318161000378 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 318161000379 Type II transport protein GspH; Region: GspH; pfam12019 318161000380 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 318161000381 type II secretion system protein I; Region: gspI; TIGR01707 318161000382 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 318161000383 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 318161000384 type II secretion system protein J; Region: gspJ; TIGR01711 318161000385 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 318161000386 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 318161000387 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 318161000388 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 318161000389 GspL periplasmic domain; Region: GspL_C; pfam12693 318161000390 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 318161000391 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 318161000392 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161000393 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161000394 Family description; Region: VCBS; pfam13517 318161000395 FG-GAP repeat; Region: FG-GAP; pfam01839 318161000396 Family description; Region: VCBS; pfam13517 318161000397 Family description; Region: VCBS; pfam13517 318161000398 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 318161000399 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161000400 RHS Repeat; Region: RHS_repeat; pfam05593 318161000401 RHS Repeat; Region: RHS_repeat; pfam05593 318161000402 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161000403 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 318161000404 Na binding site [ion binding]; other site 318161000405 gamma-glutamyl kinase; Provisional; Region: PRK13402 318161000406 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 318161000407 nucleotide binding site [chemical binding]; other site 318161000408 homotetrameric interface [polypeptide binding]; other site 318161000409 putative phosphate binding site [ion binding]; other site 318161000410 putative allosteric binding site; other site 318161000411 PUA domain; Region: PUA; cl00607 318161000412 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 318161000413 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 318161000414 putative catalytic cysteine [active] 318161000415 REJ domain; Region: REJ; pfam02010 318161000416 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 318161000417 FAD binding domain; Region: FAD_binding_4; pfam01565 318161000418 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 318161000419 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 318161000420 Biotin operon repressor [Transcription]; Region: BirA; COG1654 318161000421 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 318161000422 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 318161000423 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318161000424 pantothenate kinase; Provisional; Region: PRK05439 318161000425 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 318161000426 ATP-binding site [chemical binding]; other site 318161000427 CoA-binding site [chemical binding]; other site 318161000428 Mg2+-binding site [ion binding]; other site 318161000429 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 318161000430 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 318161000431 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 318161000432 putative homodimer interface [polypeptide binding]; other site 318161000433 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 318161000434 heterodimer interface [polypeptide binding]; other site 318161000435 homodimer interface [polypeptide binding]; other site 318161000436 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 318161000437 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 318161000438 23S rRNA interface [nucleotide binding]; other site 318161000439 L7/L12 interface [polypeptide binding]; other site 318161000440 putative thiostrepton binding site; other site 318161000441 L25 interface [polypeptide binding]; other site 318161000442 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 318161000443 mRNA/rRNA interface [nucleotide binding]; other site 318161000444 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 318161000445 23S rRNA interface [nucleotide binding]; other site 318161000446 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 318161000447 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 318161000448 core dimer interface [polypeptide binding]; other site 318161000449 peripheral dimer interface [polypeptide binding]; other site 318161000450 L10 interface [polypeptide binding]; other site 318161000451 L11 interface [polypeptide binding]; other site 318161000452 putative EF-Tu interaction site [polypeptide binding]; other site 318161000453 putative EF-G interaction site [polypeptide binding]; other site 318161000454 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 318161000455 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 318161000456 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 318161000457 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 318161000458 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 318161000459 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 318161000460 RPB3 interaction site [polypeptide binding]; other site 318161000461 RPB1 interaction site [polypeptide binding]; other site 318161000462 RPB11 interaction site [polypeptide binding]; other site 318161000463 RPB10 interaction site [polypeptide binding]; other site 318161000464 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 318161000465 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 318161000466 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 318161000467 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 318161000468 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 318161000469 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 318161000470 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318161000471 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 318161000472 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 318161000473 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 318161000474 DNA binding site [nucleotide binding] 318161000475 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 318161000476 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 318161000477 S17 interaction site [polypeptide binding]; other site 318161000478 S8 interaction site; other site 318161000479 16S rRNA interaction site [nucleotide binding]; other site 318161000480 streptomycin interaction site [chemical binding]; other site 318161000481 23S rRNA interaction site [nucleotide binding]; other site 318161000482 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 318161000483 30S ribosomal protein S7; Validated; Region: PRK05302 318161000484 elongation factor G; Reviewed; Region: PRK00007 318161000485 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318161000486 G1 box; other site 318161000487 putative GEF interaction site [polypeptide binding]; other site 318161000488 GTP/Mg2+ binding site [chemical binding]; other site 318161000489 Switch I region; other site 318161000490 G2 box; other site 318161000491 G3 box; other site 318161000492 Switch II region; other site 318161000493 G4 box; other site 318161000494 G5 box; other site 318161000495 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 318161000496 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 318161000497 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 318161000498 elongation factor Tu; Reviewed; Region: PRK00049 318161000499 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 318161000500 G1 box; other site 318161000501 GEF interaction site [polypeptide binding]; other site 318161000502 GTP/Mg2+ binding site [chemical binding]; other site 318161000503 Switch I region; other site 318161000504 G2 box; other site 318161000505 G3 box; other site 318161000506 Switch II region; other site 318161000507 G4 box; other site 318161000508 G5 box; other site 318161000509 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 318161000510 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 318161000511 Antibiotic Binding Site [chemical binding]; other site 318161000512 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 318161000513 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 318161000514 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 318161000515 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 318161000516 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 318161000517 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 318161000518 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 318161000519 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 318161000520 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 318161000521 putative translocon binding site; other site 318161000522 protein-rRNA interface [nucleotide binding]; other site 318161000523 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 318161000524 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 318161000525 G-X-X-G motif; other site 318161000526 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 318161000527 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 318161000528 23S rRNA interface [nucleotide binding]; other site 318161000529 5S rRNA interface [nucleotide binding]; other site 318161000530 putative antibiotic binding site [chemical binding]; other site 318161000531 L25 interface [polypeptide binding]; other site 318161000532 L27 interface [polypeptide binding]; other site 318161000533 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 318161000534 23S rRNA interface [nucleotide binding]; other site 318161000535 putative translocon interaction site; other site 318161000536 signal recognition particle (SRP54) interaction site; other site 318161000537 L23 interface [polypeptide binding]; other site 318161000538 trigger factor interaction site; other site 318161000539 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 318161000540 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 318161000541 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 318161000542 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 318161000543 RNA binding site [nucleotide binding]; other site 318161000544 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 318161000545 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 318161000546 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 318161000547 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 318161000548 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 318161000549 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 318161000550 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 318161000551 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 318161000552 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 318161000553 5S rRNA interface [nucleotide binding]; other site 318161000554 23S rRNA interface [nucleotide binding]; other site 318161000555 L5 interface [polypeptide binding]; other site 318161000556 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 318161000557 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 318161000558 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 318161000559 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 318161000560 23S rRNA binding site [nucleotide binding]; other site 318161000561 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 318161000562 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 318161000563 SecY translocase; Region: SecY; pfam00344 318161000564 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 318161000565 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 318161000566 30S ribosomal protein S13; Region: bact_S13; TIGR03631 318161000567 30S ribosomal protein S11; Validated; Region: PRK05309 318161000568 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 318161000569 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 318161000570 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 318161000571 RNA binding surface [nucleotide binding]; other site 318161000572 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 318161000573 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 318161000574 alphaNTD homodimer interface [polypeptide binding]; other site 318161000575 alphaNTD - beta interaction site [polypeptide binding]; other site 318161000576 alphaNTD - beta' interaction site [polypeptide binding]; other site 318161000577 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 318161000578 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 318161000579 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 318161000580 Family description; Region: VCBS; pfam13517 318161000581 Family description; Region: VCBS; pfam13517 318161000582 Family description; Region: VCBS; pfam13517 318161000583 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 318161000584 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161000585 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161000586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161000587 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161000588 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161000589 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161000590 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 318161000591 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 318161000592 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 318161000593 putative metal binding site; other site 318161000594 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 318161000595 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 318161000596 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 318161000597 active site 318161000598 (T/H)XGH motif; other site 318161000599 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 318161000600 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 318161000601 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 318161000602 DNA binding site [nucleotide binding] 318161000603 catalytic residue [active] 318161000604 H2TH interface [polypeptide binding]; other site 318161000605 putative catalytic residues [active] 318161000606 turnover-facilitating residue; other site 318161000607 intercalation triad [nucleotide binding]; other site 318161000608 8OG recognition residue [nucleotide binding]; other site 318161000609 putative reading head residues; other site 318161000610 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 318161000611 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318161000612 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 318161000613 Walker A motif; other site 318161000614 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 318161000615 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 318161000616 GTP binding site; other site 318161000617 hypothetical protein; Provisional; Region: PRK11212 318161000618 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318161000619 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318161000620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161000621 Zn2+ binding site [ion binding]; other site 318161000622 Mg2+ binding site [ion binding]; other site 318161000623 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 318161000624 malate synthase; Provisional; Region: PRK08951 318161000625 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161000626 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 318161000627 non-specific DNA binding site [nucleotide binding]; other site 318161000628 salt bridge; other site 318161000629 sequence-specific DNA binding site [nucleotide binding]; other site 318161000630 Domain of unknown function (DUF955); Region: DUF955; cl01076 318161000631 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 318161000632 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; cl17299 318161000633 heme binding pocket [chemical binding]; other site 318161000634 heme ligand [chemical binding]; other site 318161000635 PAS fold; Region: PAS_2; pfam08446 318161000636 GAF domain; Region: GAF; pfam01590 318161000637 Phytochrome region; Region: PHY; pfam00360 318161000638 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161000639 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161000640 metal binding site [ion binding]; metal-binding site 318161000641 active site 318161000642 I-site; other site 318161000643 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 318161000644 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 318161000645 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 318161000646 motif II; other site 318161000647 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 318161000648 Interdomain contacts; other site 318161000649 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318161000650 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 318161000651 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 318161000652 dimer interface [polypeptide binding]; other site 318161000653 ADP-ribose binding site [chemical binding]; other site 318161000654 active site 318161000655 nudix motif; other site 318161000656 metal binding site [ion binding]; metal-binding site 318161000657 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 318161000658 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 318161000659 active site 318161000660 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 318161000661 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 318161000662 active site residue [active] 318161000663 selenophosphate synthetase; Provisional; Region: PRK00943 318161000664 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 318161000665 dimerization interface [polypeptide binding]; other site 318161000666 putative ATP binding site [chemical binding]; other site 318161000667 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 318161000668 Fatty acid desaturase; Region: FA_desaturase; pfam00487 318161000669 Di-iron ligands [ion binding]; other site 318161000670 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 318161000671 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161000672 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 318161000673 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161000674 S-adenosylmethionine binding site [chemical binding]; other site 318161000675 glutamate racemase; Provisional; Region: PRK00865 318161000676 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 318161000677 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 318161000678 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 318161000679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161000680 active site 318161000681 phosphorylation site [posttranslational modification] 318161000682 intermolecular recognition site; other site 318161000683 dimerization interface [polypeptide binding]; other site 318161000684 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 318161000685 DNA binding site [nucleotide binding] 318161000686 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 318161000687 dimerization interface [polypeptide binding]; other site 318161000688 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 318161000689 dimer interface [polypeptide binding]; other site 318161000690 phosphorylation site [posttranslational modification] 318161000691 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161000692 ATP binding site [chemical binding]; other site 318161000693 Mg2+ binding site [ion binding]; other site 318161000694 G-X-G motif; other site 318161000695 YHYH protein; Region: YHYH; pfam14240 318161000696 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161000697 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161000698 DNA-binding interface [nucleotide binding]; DNA binding site 318161000699 Integrase core domain; Region: rve; pfam00665 318161000700 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 318161000701 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 318161000702 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 318161000703 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318161000704 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318161000705 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318161000706 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 318161000707 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 318161000708 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 318161000709 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 318161000710 RNA binding site [nucleotide binding]; other site 318161000711 Predicted ATPase [General function prediction only]; Region: COG3910 318161000712 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 318161000713 Walker A/P-loop; other site 318161000714 ATP binding site [chemical binding]; other site 318161000715 Q-loop/lid; other site 318161000716 ABC transporter signature motif; other site 318161000717 Walker B; other site 318161000718 D-loop; other site 318161000719 H-loop/switch region; other site 318161000720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161000721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161000722 metal binding site [ion binding]; metal-binding site 318161000723 active site 318161000724 I-site; other site 318161000725 competence damage-inducible protein A; Provisional; Region: PRK00549 318161000726 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 318161000727 putative MPT binding site; other site 318161000728 Competence-damaged protein; Region: CinA; pfam02464 318161000729 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 318161000730 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 318161000731 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 318161000732 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318161000733 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 318161000734 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 318161000735 acetylglutamate kinase; Provisional; Region: PRK00942 318161000736 nucleotide binding site [chemical binding]; other site 318161000737 substrate binding site [chemical binding]; other site 318161000738 ornithine carbamoyltransferase; Provisional; Region: PRK14805 318161000739 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318161000740 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 318161000741 argininosuccinate synthase; Provisional; Region: PRK13820 318161000742 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 318161000743 ANP binding site [chemical binding]; other site 318161000744 Substrate Binding Site II [chemical binding]; other site 318161000745 Substrate Binding Site I [chemical binding]; other site 318161000746 argininosuccinate lyase; Provisional; Region: PRK04833 318161000747 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 318161000748 active sites [active] 318161000749 tetramer interface [polypeptide binding]; other site 318161000750 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 318161000751 Transglycosylase; Region: Transgly; pfam00912 318161000752 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 318161000753 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318161000754 Competence protein A; Region: Competence_A; pfam11104 318161000755 nucleotide binding site [chemical binding]; other site 318161000756 Cell division protein FtsA; Region: FtsA; pfam14450 318161000757 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 318161000758 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 318161000759 Pilus assembly protein, PilO; Region: PilO; pfam04350 318161000760 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 318161000761 Pilus assembly protein, PilP; Region: PilP; pfam04351 318161000762 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 318161000763 Secretin and TonB N terminus short domain; Region: STN; smart00965 318161000764 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 318161000765 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318161000766 shikimate kinase; Reviewed; Region: aroK; PRK00131 318161000767 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 318161000768 ADP binding site [chemical binding]; other site 318161000769 magnesium binding site [ion binding]; other site 318161000770 putative shikimate binding site; other site 318161000771 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 318161000772 active site 318161000773 dimer interface [polypeptide binding]; other site 318161000774 metal binding site [ion binding]; metal-binding site 318161000775 AAA domain; Region: AAA_22; pfam13401 318161000776 Sporulation related domain; Region: SPOR; pfam05036 318161000777 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 318161000778 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 318161000779 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 318161000780 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 318161000781 substrate binding site [chemical binding]; other site 318161000782 hexamer interface [polypeptide binding]; other site 318161000783 metal binding site [ion binding]; metal-binding site 318161000784 phosphoglycolate phosphatase; Provisional; Region: PRK13222 318161000785 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 318161000786 motif II; other site 318161000787 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 318161000788 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 318161000789 active site 318161000790 HIGH motif; other site 318161000791 dimer interface [polypeptide binding]; other site 318161000792 KMSKS motif; other site 318161000793 BON domain; Region: BON; pfam04972 318161000794 BON domain; Region: BON; pfam04972 318161000795 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 318161000796 dimer interface [polypeptide binding]; other site 318161000797 active site 318161000798 hypothetical protein; Reviewed; Region: PRK12497 318161000799 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 318161000800 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 318161000801 putative ligand binding site [chemical binding]; other site 318161000802 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 318161000803 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 318161000804 putative SAM binding site [chemical binding]; other site 318161000805 putative homodimer interface [polypeptide binding]; other site 318161000806 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 318161000807 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 318161000808 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 318161000809 putative amphipathic alpha helix; other site 318161000810 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318161000811 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161000812 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161000813 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 318161000814 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 318161000815 serine/threonine protein kinase; Provisional; Region: PRK11768 318161000816 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 318161000817 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 318161000818 catalytic residues [active] 318161000819 hinge region; other site 318161000820 alpha helical domain; other site 318161000821 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 318161000822 Protein of unknown function (DUF904); Region: DUF904; cl11531 318161000823 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 318161000824 homotrimer interaction site [polypeptide binding]; other site 318161000825 putative active site [active] 318161000826 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 318161000827 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 318161000828 homodimer interface [polypeptide binding]; other site 318161000829 substrate-cofactor binding pocket; other site 318161000830 catalytic residue [active] 318161000831 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 318161000832 ERCC4 domain; Region: ERCC4; pfam02732 318161000833 SEC-C motif; Region: SEC-C; pfam02810 318161000834 Fic family protein [Function unknown]; Region: COG3177 318161000835 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 318161000836 Fic/DOC family; Region: Fic; pfam02661 318161000837 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; cl17220 318161000838 dimerization interface [polypeptide binding]; other site 318161000839 putative Zn2+ binding site [ion binding]; other site 318161000840 putative DNA binding site [nucleotide binding]; other site 318161000841 Fic family protein [Function unknown]; Region: COG3177 318161000842 Fic/DOC family; Region: Fic; pfam02661 318161000843 AAA domain; Region: AAA_14; pfam13173 318161000844 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 318161000845 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 318161000846 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 318161000847 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 318161000848 PLD-like domain; Region: PLDc_2; pfam13091 318161000849 putative homodimer interface [polypeptide binding]; other site 318161000850 putative active site [active] 318161000851 catalytic site [active] 318161000852 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318161000853 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 318161000854 ATP binding site [chemical binding]; other site 318161000855 putative Mg++ binding site [ion binding]; other site 318161000856 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 318161000857 nucleotide binding region [chemical binding]; other site 318161000858 ATP-binding site [chemical binding]; other site 318161000859 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 318161000860 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 318161000861 dimer interface [polypeptide binding]; other site 318161000862 active site 318161000863 Schiff base residues; other site 318161000864 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 318161000865 EamA-like transporter family; Region: EamA; pfam00892 318161000866 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 318161000867 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 318161000868 DNA binding residues [nucleotide binding] 318161000869 dimerization interface [polypeptide binding]; other site 318161000870 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 318161000871 non-specific DNA binding site [nucleotide binding]; other site 318161000872 salt bridge; other site 318161000873 sequence-specific DNA binding site [nucleotide binding]; other site 318161000874 HipA N-terminal domain; Region: Couple_hipA; pfam13657 318161000875 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 318161000876 HipA-like N-terminal domain; Region: HipA_N; pfam07805 318161000877 HipA-like C-terminal domain; Region: HipA_C; pfam07804 318161000878 Methyltransferase domain; Region: Methyltransf_26; pfam13659 318161000879 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 318161000880 active site 318161000881 NTP binding site [chemical binding]; other site 318161000882 metal binding triad [ion binding]; metal-binding site 318161000883 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 318161000884 active site 318161000885 DNA binding site [nucleotide binding] 318161000886 Int/Topo IB signature motif; other site 318161000887 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 318161000888 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 318161000889 active site 318161000890 Int/Topo IB signature motif; other site 318161000891 hypothetical protein; Provisional; Region: PRK11820 318161000892 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 318161000893 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 318161000894 ribonuclease PH; Reviewed; Region: rph; PRK00173 318161000895 Ribonuclease PH; Region: RNase_PH_bact; cd11362 318161000896 hexamer interface [polypeptide binding]; other site 318161000897 active site 318161000898 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161000899 active site 318161000900 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 318161000901 active site 318161000902 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318161000903 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161000904 division inhibitor protein; Provisional; Region: slmA; PRK09480 318161000905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161000906 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 318161000907 trimer interface [polypeptide binding]; other site 318161000908 active site 318161000909 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 318161000910 Flavoprotein; Region: Flavoprotein; pfam02441 318161000911 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 318161000912 hypothetical protein; Reviewed; Region: PRK00024 318161000913 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 318161000914 MPN+ (JAMM) motif; other site 318161000915 Zinc-binding site [ion binding]; other site 318161000916 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 318161000917 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 318161000918 N-acetylglutamate synthase; Validated; Region: PRK05279 318161000919 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 318161000920 putative feedback inhibition sensing region; other site 318161000921 putative nucleotide binding site [chemical binding]; other site 318161000922 putative substrate binding site [chemical binding]; other site 318161000923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161000924 Coenzyme A binding pocket [chemical binding]; other site 318161000925 Predicted permeases [General function prediction only]; Region: RarD; COG2962 318161000926 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 318161000927 CoenzymeA binding site [chemical binding]; other site 318161000928 subunit interaction site [polypeptide binding]; other site 318161000929 PHB binding site; other site 318161000930 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 318161000931 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 318161000932 ATP binding site [chemical binding]; other site 318161000933 putative Mg++ binding site [ion binding]; other site 318161000934 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 318161000935 nucleotide binding region [chemical binding]; other site 318161000936 ATP-binding site [chemical binding]; other site 318161000937 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 318161000938 HRDC domain; Region: HRDC; pfam00570 318161000939 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318161000940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161000941 metal binding site [ion binding]; metal-binding site 318161000942 active site 318161000943 I-site; other site 318161000944 2-isopropylmalate synthase; Validated; Region: PRK00915 318161000945 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 318161000946 active site 318161000947 catalytic residues [active] 318161000948 metal binding site [ion binding]; metal-binding site 318161000949 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 318161000950 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 318161000951 tartrate dehydrogenase; Region: TTC; TIGR02089 318161000952 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 318161000953 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 318161000954 substrate binding site [chemical binding]; other site 318161000955 ligand binding site [chemical binding]; other site 318161000956 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 318161000957 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 318161000958 substrate binding site [chemical binding]; other site 318161000959 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 318161000960 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 318161000961 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 318161000962 SnoaL-like domain; Region: SnoaL_2; pfam12680 318161000963 glycerol kinase; Provisional; Region: glpK; PRK00047 318161000964 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 318161000965 N- and C-terminal domain interface [polypeptide binding]; other site 318161000966 active site 318161000967 MgATP binding site [chemical binding]; other site 318161000968 catalytic site [active] 318161000969 metal binding site [ion binding]; metal-binding site 318161000970 glycerol binding site [chemical binding]; other site 318161000971 homotetramer interface [polypeptide binding]; other site 318161000972 homodimer interface [polypeptide binding]; other site 318161000973 FBP binding site [chemical binding]; other site 318161000974 protein IIAGlc interface [polypeptide binding]; other site 318161000975 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 318161000976 catalytic loop [active] 318161000977 iron binding site [ion binding]; other site 318161000978 cell division protein MraZ; Reviewed; Region: PRK00326 318161000979 MraZ protein; Region: MraZ; pfam02381 318161000980 MraZ protein; Region: MraZ; pfam02381 318161000981 MraW methylase family; Region: Methyltransf_5; pfam01795 318161000982 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 318161000983 Cell division protein FtsL; Region: FtsL; pfam04999 318161000984 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 318161000985 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318161000986 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 318161000987 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 318161000988 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318161000989 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318161000990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318161000991 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 318161000992 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318161000993 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318161000994 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318161000995 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 318161000996 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 318161000997 Mg++ binding site [ion binding]; other site 318161000998 putative catalytic motif [active] 318161000999 putative substrate binding site [chemical binding]; other site 318161001000 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 318161001001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161001002 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318161001003 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318161001004 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318161001005 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 318161001006 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 318161001007 active site 318161001008 homodimer interface [polypeptide binding]; other site 318161001009 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 318161001010 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318161001011 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318161001012 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318161001013 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 318161001014 Cell division protein FtsQ; Region: FtsQ; pfam03799 318161001015 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 318161001016 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318161001017 nucleotide binding site [chemical binding]; other site 318161001018 Cell division protein FtsA; Region: FtsA; pfam14450 318161001019 cell division protein FtsZ; Validated; Region: PRK09330 318161001020 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 318161001021 nucleotide binding site [chemical binding]; other site 318161001022 SulA interaction site; other site 318161001023 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 318161001024 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 318161001025 Protein of unknown function (DUF721); Region: DUF721; cl02324 318161001026 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318161001027 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161001028 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 318161001029 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 318161001030 SEC-C motif; Region: SEC-C; pfam02810 318161001031 Transposase, Mutator family; Region: Transposase_mut; pfam00872 318161001032 MULE transposase domain; Region: MULE; pfam10551 318161001033 HTH-like domain; Region: HTH_21; pfam13276 318161001034 Integrase core domain; Region: rve; pfam00665 318161001035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161001036 Divergent AAA domain; Region: AAA_4; pfam04326 318161001037 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 318161001038 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 318161001039 TrkA-N domain; Region: TrkA_N; pfam02254 318161001040 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 318161001041 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318161001042 Calx-beta domain; Region: Calx-beta; cl02522 318161001043 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 318161001044 YHYH protein; Region: YHYH; pfam14240 318161001045 Uncharacterized conserved protein [Function unknown]; Region: COG1432 318161001046 LabA_like proteins; Region: LabA; cd10911 318161001047 putative metal binding site [ion binding]; other site 318161001048 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 318161001049 apolar tunnel; other site 318161001050 heme binding site [chemical binding]; other site 318161001051 dimerization interface [polypeptide binding]; other site 318161001052 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 318161001053 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 318161001054 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001056 metal binding site [ion binding]; metal-binding site 318161001057 active site 318161001058 I-site; other site 318161001059 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 318161001060 Cna protein B-type domain; Region: Cna_B; pfam05738 318161001061 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 318161001062 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 318161001063 dimerization interface [polypeptide binding]; other site 318161001064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001065 metal binding site [ion binding]; metal-binding site 318161001066 active site 318161001067 I-site; other site 318161001068 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 318161001069 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 318161001070 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318161001071 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161001072 ligand binding site [chemical binding]; other site 318161001073 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 318161001074 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318161001075 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161001076 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161001077 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 318161001078 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 318161001079 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161001080 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 318161001081 Walker A/P-loop; other site 318161001082 ATP binding site [chemical binding]; other site 318161001083 Q-loop/lid; other site 318161001084 ABC transporter signature motif; other site 318161001085 Walker B; other site 318161001086 D-loop; other site 318161001087 H-loop/switch region; other site 318161001088 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001089 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001090 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001091 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001092 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001093 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001094 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001095 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001096 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001097 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001098 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001099 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001100 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001101 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001102 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001103 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001104 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001105 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001106 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001107 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001108 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001109 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001110 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001111 VCBS repeat; Region: VCBS_repeat; TIGR01965 318161001112 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 318161001113 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 318161001114 metal ion-dependent adhesion site (MIDAS); other site 318161001115 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 318161001116 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 318161001117 HemY protein N-terminus; Region: HemY_N; pfam07219 318161001118 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 318161001119 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 318161001120 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 318161001121 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 318161001122 active site 318161001123 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 318161001124 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 318161001125 domain interfaces; other site 318161001126 active site 318161001127 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 318161001128 putative iron binding site [ion binding]; other site 318161001129 diaminopimelate decarboxylase; Region: lysA; TIGR01048 318161001130 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 318161001131 active site 318161001132 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318161001133 substrate binding site [chemical binding]; other site 318161001134 catalytic residues [active] 318161001135 dimer interface [polypeptide binding]; other site 318161001136 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 318161001137 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 318161001138 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 318161001139 Protein of unknown function, DUF484; Region: DUF484; cl17449 318161001140 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 318161001141 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 318161001142 active site 318161001143 DNA binding site [nucleotide binding] 318161001144 Int/Topo IB signature motif; other site 318161001145 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 318161001146 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 318161001147 motif II; other site 318161001148 Divergent AAA domain; Region: AAA_4; pfam04326 318161001149 Galactose oxidase, central domain; Region: Kelch_3; cl02701 318161001150 FAD binding domain; Region: FAD_binding_3; pfam01494 318161001151 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 318161001152 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 318161001153 putative Ile/Val binding site [chemical binding]; other site 318161001154 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 318161001155 putative Ile/Val binding site [chemical binding]; other site 318161001156 Abi-like protein; Region: Abi_2; pfam07751 318161001157 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161001158 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161001159 DNA-binding interface [nucleotide binding]; DNA binding site 318161001160 Integrase core domain; Region: rve; pfam00665 318161001161 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 318161001162 homodimer interface [polypeptide binding]; other site 318161001163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161001164 catalytic residue [active] 318161001165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 318161001166 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 318161001167 Part of AAA domain; Region: AAA_19; pfam13245 318161001168 Family description; Region: UvrD_C_2; pfam13538 318161001169 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318161001170 GAF domain; Region: GAF_3; pfam13492 318161001171 GAF domain; Region: GAF_3; pfam13492 318161001172 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318161001173 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001175 metal binding site [ion binding]; metal-binding site 318161001176 active site 318161001177 I-site; other site 318161001178 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 318161001179 sensory histidine kinase DcuS; Provisional; Region: PRK11086 318161001180 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 318161001181 Zn binding site [ion binding]; other site 318161001182 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 318161001183 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 318161001184 substrate binding pocket [chemical binding]; other site 318161001185 membrane-bound complex binding site; other site 318161001186 hinge residues; other site 318161001187 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 318161001188 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 318161001189 NAD(P) binding site [chemical binding]; other site 318161001190 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 318161001191 active site 318161001192 catalytic residues [active] 318161001193 galactokinase; Provisional; Region: PRK05101 318161001194 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 318161001195 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 318161001196 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318161001197 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318161001198 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 318161001199 TrkA-N domain; Region: TrkA_N; pfam02254 318161001200 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 318161001201 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 318161001202 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 318161001203 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 318161001204 DsbD alpha interface [polypeptide binding]; other site 318161001205 catalytic residues [active] 318161001206 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 318161001207 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 318161001208 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318161001209 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318161001210 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 318161001211 oligomerisation interface [polypeptide binding]; other site 318161001212 mobile loop; other site 318161001213 roof hairpin; other site 318161001214 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 318161001215 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 318161001216 ring oligomerisation interface [polypeptide binding]; other site 318161001217 ATP/Mg binding site [chemical binding]; other site 318161001218 stacking interactions; other site 318161001219 hinge regions; other site 318161001220 Transposase; Region: HTH_Tnp_1; pfam01527 318161001221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161001222 putative transposase OrfB; Reviewed; Region: PHA02517 318161001223 HTH-like domain; Region: HTH_21; pfam13276 318161001224 Integrase core domain; Region: rve; pfam00665 318161001225 Integrase core domain; Region: rve_2; pfam13333 318161001226 Abi-like protein; Region: Abi_2; cl01988 318161001227 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161001228 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 318161001229 non-specific DNA binding site [nucleotide binding]; other site 318161001230 salt bridge; other site 318161001231 sequence-specific DNA binding site [nucleotide binding]; other site 318161001232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001233 metal binding site [ion binding]; metal-binding site 318161001234 active site 318161001235 I-site; other site 318161001236 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 318161001237 PAS domain S-box; Region: sensory_box; TIGR00229 318161001238 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001240 metal binding site [ion binding]; metal-binding site 318161001241 active site 318161001242 I-site; other site 318161001243 PBP superfamily domain; Region: PBP_like_2; cl17296 318161001244 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318161001245 hypothetical protein; Provisional; Region: PRK05208 318161001246 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161001247 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 318161001248 DNA binding site [nucleotide binding] 318161001249 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161001250 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318161001251 DNA-binding site [nucleotide binding]; DNA binding site 318161001252 RNA-binding motif; other site 318161001253 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 318161001254 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 318161001255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001257 metal binding site [ion binding]; metal-binding site 318161001258 active site 318161001259 I-site; other site 318161001260 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 318161001261 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 318161001262 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 318161001263 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 318161001264 FMN binding site [chemical binding]; other site 318161001265 active site 318161001266 catalytic residues [active] 318161001267 substrate binding site [chemical binding]; other site 318161001268 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 318161001269 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318161001270 transcription termination factor Rho; Provisional; Region: rho; PRK09376 318161001271 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 318161001272 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 318161001273 RNA binding site [nucleotide binding]; other site 318161001274 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 318161001275 multimer interface [polypeptide binding]; other site 318161001276 Walker A motif; other site 318161001277 ATP binding site [chemical binding]; other site 318161001278 Walker B motif; other site 318161001279 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 318161001280 catalytic residues [active] 318161001281 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 318161001282 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 318161001283 ATP binding site [chemical binding]; other site 318161001284 Mg++ binding site [ion binding]; other site 318161001285 motif III; other site 318161001286 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 318161001287 nucleotide binding region [chemical binding]; other site 318161001288 ATP-binding site [chemical binding]; other site 318161001289 exopolyphosphatase; Region: exo_poly_only; TIGR03706 318161001290 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 318161001291 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 318161001292 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318161001293 catalytic residues [active] 318161001294 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 318161001295 dimer interface [polypeptide binding]; other site 318161001296 allosteric magnesium binding site [ion binding]; other site 318161001297 active site 318161001298 aspartate-rich active site metal binding site; other site 318161001299 Schiff base residues; other site 318161001300 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 318161001301 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 318161001302 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001303 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001304 metal binding site [ion binding]; metal-binding site 318161001305 active site 318161001306 I-site; other site 318161001307 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318161001308 active site 318161001309 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 318161001310 sec-independent translocase; Provisional; Region: PRK01770 318161001311 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 318161001312 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 318161001313 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 318161001314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 318161001315 SCP-2 sterol transfer family; Region: SCP2; pfam02036 318161001316 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 318161001317 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161001318 S-adenosylmethionine binding site [chemical binding]; other site 318161001319 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 318161001320 putative active site [active] 318161001321 putative metal binding site [ion binding]; other site 318161001322 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 318161001323 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 318161001324 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 318161001325 active site 318161001326 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 318161001327 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 318161001328 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 318161001329 substrate binding site [chemical binding]; other site 318161001330 active site 318161001331 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 318161001332 putative active site [active] 318161001333 catalytic site [active] 318161001334 putative metal binding site [ion binding]; other site 318161001335 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 318161001336 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 318161001337 N-terminal plug; other site 318161001338 ligand-binding site [chemical binding]; other site 318161001339 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 318161001340 Beta-lactamase; Region: Beta-lactamase; pfam00144 318161001341 Predicted transcriptional regulators [Transcription]; Region: COG1695 318161001342 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 318161001343 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 318161001344 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 318161001345 putative active site [active] 318161001346 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161001347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161001348 Walker A/P-loop; other site 318161001349 ATP binding site [chemical binding]; other site 318161001350 Q-loop/lid; other site 318161001351 ABC transporter signature motif; other site 318161001352 Walker B; other site 318161001353 D-loop; other site 318161001354 H-loop/switch region; other site 318161001355 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 318161001356 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161001357 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161001358 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 318161001359 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161001360 Transposase [DNA replication, recombination, and repair]; Region: COG5433 318161001361 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 318161001362 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 318161001363 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 318161001364 DHHA2 domain; Region: DHHA2; pfam02833 318161001365 Domain of unknown function (DUF386); Region: DUF386; cl01047 318161001366 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 318161001367 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 318161001368 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 318161001369 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 318161001370 probable active site [active] 318161001371 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 318161001372 UbiA prenyltransferase family; Region: UbiA; pfam01040 318161001373 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 318161001374 Part of AAA domain; Region: AAA_19; pfam13245 318161001375 Family description; Region: UvrD_C_2; pfam13538 318161001376 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 318161001377 dimerization domain swap beta strand [polypeptide binding]; other site 318161001378 regulatory protein interface [polypeptide binding]; other site 318161001379 active site 318161001380 regulatory phosphorylation site [posttranslational modification]; other site 318161001381 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 318161001382 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 318161001383 active site 318161001384 phosphorylation site [posttranslational modification] 318161001385 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 318161001386 30S subunit binding site; other site 318161001387 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 318161001388 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 318161001389 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 318161001390 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 318161001391 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 318161001392 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 318161001393 Walker A/P-loop; other site 318161001394 ATP binding site [chemical binding]; other site 318161001395 Q-loop/lid; other site 318161001396 ABC transporter signature motif; other site 318161001397 Walker B; other site 318161001398 D-loop; other site 318161001399 H-loop/switch region; other site 318161001400 OstA-like protein; Region: OstA; cl00844 318161001401 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 318161001402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 318161001403 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 318161001404 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 318161001405 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 318161001406 active site 318161001407 motif I; other site 318161001408 motif II; other site 318161001409 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 318161001410 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 318161001411 putative active site [active] 318161001412 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 318161001413 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 318161001414 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318161001415 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318161001416 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 318161001417 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 318161001418 Walker A/P-loop; other site 318161001419 ATP binding site [chemical binding]; other site 318161001420 Q-loop/lid; other site 318161001421 ABC transporter signature motif; other site 318161001422 Walker B; other site 318161001423 D-loop; other site 318161001424 H-loop/switch region; other site 318161001425 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 318161001426 conserved hypothetical integral membrane protein; Region: TIGR00056 318161001427 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 318161001428 mce related protein; Region: MCE; pfam02470 318161001429 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 318161001430 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 318161001431 anti sigma factor interaction site; other site 318161001432 regulatory phosphorylation site [posttranslational modification]; other site 318161001433 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 318161001434 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 318161001435 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 318161001436 hinge; other site 318161001437 active site 318161001438 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 318161001439 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 318161001440 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 318161001441 protein binding site [polypeptide binding]; other site 318161001442 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 318161001443 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 318161001444 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 318161001445 protein binding site [polypeptide binding]; other site 318161001446 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 318161001447 Predicted ATPase [General function prediction only]; Region: COG1485 318161001448 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 318161001449 23S rRNA interface [nucleotide binding]; other site 318161001450 L3 interface [polypeptide binding]; other site 318161001451 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 318161001452 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 318161001453 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 318161001454 GDP-binding site [chemical binding]; other site 318161001455 ACT binding site; other site 318161001456 IMP binding site; other site 318161001457 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318161001458 Sel1-like repeats; Region: SEL1; smart00671 318161001459 exoribonuclease R; Provisional; Region: PRK11642 318161001460 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 318161001461 RNB domain; Region: RNB; pfam00773 318161001462 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 318161001463 RNA binding site [nucleotide binding]; other site 318161001464 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 318161001465 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 318161001466 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 318161001467 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161001468 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161001469 putative substrate translocation pore; other site 318161001470 Protein of unknown function, DUF481; Region: DUF481; pfam04338 318161001471 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 318161001472 primosomal replication protein N; Provisional; Region: PRK02801 318161001473 generic binding surface I; other site 318161001474 generic binding surface II; other site 318161001475 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 318161001476 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 318161001477 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 318161001478 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 318161001479 Peptidase S46; Region: Peptidase_S46; pfam10459 318161001480 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 318161001481 replicative DNA helicase; Provisional; Region: PRK08840 318161001482 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 318161001483 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 318161001484 Walker A motif; other site 318161001485 ATP binding site [chemical binding]; other site 318161001486 Walker B motif; other site 318161001487 DNA binding loops [nucleotide binding] 318161001488 alanine racemase; Reviewed; Region: alr; PRK00053 318161001489 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 318161001490 active site 318161001491 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318161001492 substrate binding site [chemical binding]; other site 318161001493 catalytic residues [active] 318161001494 dimer interface [polypeptide binding]; other site 318161001495 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 318161001496 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 318161001497 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 318161001498 active site 2 [active] 318161001499 active site 1 [active] 318161001500 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 318161001501 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 318161001502 putative ligand binding site [chemical binding]; other site 318161001503 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 318161001504 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 318161001505 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 318161001506 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 318161001507 putative acyl-acceptor binding pocket; other site 318161001508 RNase E inhibitor protein; Provisional; Region: PRK11191 318161001509 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 318161001510 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 318161001511 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001513 metal binding site [ion binding]; metal-binding site 318161001514 active site 318161001515 I-site; other site 318161001516 Response regulator receiver domain; Region: Response_reg; pfam00072 318161001517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001518 active site 318161001519 phosphorylation site [posttranslational modification] 318161001520 intermolecular recognition site; other site 318161001521 dimerization interface [polypeptide binding]; other site 318161001522 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 318161001523 enoyl-CoA hydratase; Provisional; Region: PRK07509 318161001524 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 318161001525 substrate binding site [chemical binding]; other site 318161001526 oxyanion hole (OAH) forming residues; other site 318161001527 trimer interface [polypeptide binding]; other site 318161001528 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 318161001529 ATP-dependent helicase HepA; Validated; Region: PRK04914 318161001530 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 318161001531 ATP binding site [chemical binding]; other site 318161001532 putative Mg++ binding site [ion binding]; other site 318161001533 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 318161001534 nucleotide binding region [chemical binding]; other site 318161001535 ATP-binding site [chemical binding]; other site 318161001536 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 318161001537 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 318161001538 putative active site [active] 318161001539 PhoH-like protein; Region: PhoH; pfam02562 318161001540 Cache domain; Region: Cache_1; pfam02743 318161001541 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 318161001542 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318161001543 putative active site [active] 318161001544 heme pocket [chemical binding]; other site 318161001545 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 318161001546 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318161001547 putative active site [active] 318161001548 heme pocket [chemical binding]; other site 318161001549 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 318161001550 dimer interface [polypeptide binding]; other site 318161001551 phosphorylation site [posttranslational modification] 318161001552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161001553 ATP binding site [chemical binding]; other site 318161001554 Mg2+ binding site [ion binding]; other site 318161001555 G-X-G motif; other site 318161001556 Response regulator receiver domain; Region: Response_reg; pfam00072 318161001557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001558 active site 318161001559 phosphorylation site [posttranslational modification] 318161001560 intermolecular recognition site; other site 318161001561 dimerization interface [polypeptide binding]; other site 318161001562 Response regulator receiver domain; Region: Response_reg; pfam00072 318161001563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001564 active site 318161001565 phosphorylation site [posttranslational modification] 318161001566 intermolecular recognition site; other site 318161001567 dimerization interface [polypeptide binding]; other site 318161001568 Protein kinase domain; Region: Pkinase; pfam00069 318161001569 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318161001570 active site 318161001571 ATP binding site [chemical binding]; other site 318161001572 substrate binding site [chemical binding]; other site 318161001573 activation loop (A-loop); other site 318161001574 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 318161001575 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 318161001576 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 318161001577 putative ATP binding site [chemical binding]; other site 318161001578 putative substrate interface [chemical binding]; other site 318161001579 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161001580 ATP binding site [chemical binding]; other site 318161001581 Mg2+ binding site [ion binding]; other site 318161001582 G-X-G motif; other site 318161001583 Superinfection exclusion protein B; Region: SieB; pfam14163 318161001584 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 318161001585 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161001586 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161001587 HPP family; Region: HPP; pfam04982 318161001588 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 318161001589 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161001590 catalytic residue [active] 318161001591 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 318161001592 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 318161001593 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 318161001594 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 318161001595 active site 318161001596 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 318161001597 MltA-interacting protein MipA; Region: MipA; cl01504 318161001598 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 318161001599 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161001600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001601 active site 318161001602 phosphorylation site [posttranslational modification] 318161001603 intermolecular recognition site; other site 318161001604 dimerization interface [polypeptide binding]; other site 318161001605 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 318161001606 DNA binding site [nucleotide binding] 318161001607 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 318161001608 dimerization interface [polypeptide binding]; other site 318161001609 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 318161001610 dimer interface [polypeptide binding]; other site 318161001611 phosphorylation site [posttranslational modification] 318161001612 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161001613 ATP binding site [chemical binding]; other site 318161001614 Mg2+ binding site [ion binding]; other site 318161001615 G-X-G motif; other site 318161001616 Predicted periplasmic protein [Function unknown]; Region: COG3904 318161001617 MltA-interacting protein MipA; Region: MipA; cl01504 318161001618 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 318161001619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161001620 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 318161001621 DNA binding site [nucleotide binding] 318161001622 Protein of unknown function (DUF560); Region: DUF560; pfam04575 318161001623 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 318161001624 active site 318161001625 catalytic triad [active] 318161001626 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161001627 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 318161001628 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 318161001629 DNA binding residues [nucleotide binding] 318161001630 CHASE4 domain; Region: CHASE4; pfam05228 318161001631 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161001632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001633 metal binding site [ion binding]; metal-binding site 318161001634 active site 318161001635 I-site; other site 318161001636 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 318161001637 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318161001638 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161001639 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 318161001640 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161001641 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318161001642 Protein export membrane protein; Region: SecD_SecF; cl14618 318161001643 Protein of unknown function (DUF465); Region: DUF465; pfam04325 318161001644 Penicillinase repressor; Region: Pencillinase_R; pfam03965 318161001645 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 318161001646 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 318161001647 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318161001648 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 318161001649 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318161001650 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 318161001651 N-terminal plug; other site 318161001652 ligand-binding site [chemical binding]; other site 318161001653 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 318161001654 ParB-like nuclease domain; Region: ParB; smart00470 318161001655 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 318161001656 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 318161001657 dimer interface [polypeptide binding]; other site 318161001658 active site 318161001659 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318161001660 catalytic residues [active] 318161001661 substrate binding site [chemical binding]; other site 318161001662 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 318161001663 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 318161001664 IucA / IucC family; Region: IucA_IucC; pfam04183 318161001665 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 318161001666 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 318161001667 IucA / IucC family; Region: IucA_IucC; pfam04183 318161001668 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 318161001669 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161001670 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161001671 putative substrate translocation pore; other site 318161001672 IucA / IucC family; Region: IucA_IucC; pfam04183 318161001673 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 318161001674 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 318161001675 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 318161001676 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 318161001677 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 318161001678 dimer interface [polypeptide binding]; other site 318161001679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161001680 catalytic residue [active] 318161001681 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 318161001682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161001683 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161001684 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161001685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161001686 HTH-like domain; Region: HTH_21; pfam13276 318161001687 Integrase core domain; Region: rve; pfam00665 318161001688 Integrase core domain; Region: rve_3; pfam13683 318161001689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161001690 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161001691 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 318161001692 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161001693 Transposase [DNA replication, recombination, and repair]; Region: COG5433 318161001694 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 318161001695 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318161001696 metal binding site [ion binding]; metal-binding site 318161001697 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 318161001698 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 318161001699 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161001700 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161001701 ATP binding site [chemical binding]; other site 318161001702 Mg2+ binding site [ion binding]; other site 318161001703 G-X-G motif; other site 318161001704 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 318161001705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001706 active site 318161001707 phosphorylation site [posttranslational modification] 318161001708 intermolecular recognition site; other site 318161001709 dimerization interface [polypeptide binding]; other site 318161001710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161001711 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...; Region: Lipase_3; cd00519 318161001712 active site flap/lid [active] 318161001713 nucleophilic elbow; other site 318161001714 catalytic triad [active] 318161001715 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318161001716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161001717 I-site; other site 318161001718 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 318161001719 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 318161001720 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 318161001721 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 318161001722 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 318161001723 N-terminal plug; other site 318161001724 ligand-binding site [chemical binding]; other site 318161001725 Helix-turn-helix domain; Region: HTH_18; pfam12833 318161001726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161001727 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318161001728 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318161001729 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 318161001730 dimerization interface [polypeptide binding]; other site 318161001731 DNA binding site [nucleotide binding] 318161001732 corepressor binding sites; other site 318161001733 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 318161001734 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 318161001735 homodimer interface [polypeptide binding]; other site 318161001736 substrate-cofactor binding pocket; other site 318161001737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161001738 catalytic residue [active] 318161001739 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 318161001740 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 318161001741 nucleotide binding site [chemical binding]; other site 318161001742 substrate binding site [chemical binding]; other site 318161001743 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318161001744 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318161001745 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318161001746 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318161001747 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318161001748 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 318161001749 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318161001750 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 318161001751 N-terminal plug; other site 318161001752 ligand-binding site [chemical binding]; other site 318161001753 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 318161001754 Condensation domain; Region: Condensation; pfam00668 318161001755 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161001756 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161001757 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161001758 putative substrate translocation pore; other site 318161001759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161001760 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318161001761 Glutamine amidotransferase class-I; Region: GATase; pfam00117 318161001762 glutamine binding [chemical binding]; other site 318161001763 catalytic triad [active] 318161001764 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 318161001765 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 318161001766 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 318161001767 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161001768 acyl-activating enzyme (AAE) consensus motif; other site 318161001769 AMP binding site [chemical binding]; other site 318161001770 active site 318161001771 CoA binding site [chemical binding]; other site 318161001772 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161001773 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161001774 acyl-activating enzyme (AAE) consensus motif; other site 318161001775 AMP binding site [chemical binding]; other site 318161001776 active site 318161001777 CoA binding site [chemical binding]; other site 318161001778 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161001779 Condensation domain; Region: Condensation; pfam00668 318161001780 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161001781 Nonribosomal peptide synthase; Region: NRPS; pfam08415 318161001782 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 318161001783 acyl-activating enzyme (AAE) consensus motif; other site 318161001784 AMP binding site [chemical binding]; other site 318161001785 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161001786 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 318161001787 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318161001788 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 318161001789 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 318161001790 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 318161001791 dimer interface [polypeptide binding]; other site 318161001792 active site 318161001793 glycine-pyridoxal phosphate binding site [chemical binding]; other site 318161001794 folate binding site [chemical binding]; other site 318161001795 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161001796 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 318161001797 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 318161001798 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 318161001799 putative S-transferase; Provisional; Region: PRK11752 318161001800 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 318161001801 C-terminal domain interface [polypeptide binding]; other site 318161001802 GSH binding site (G-site) [chemical binding]; other site 318161001803 dimer interface [polypeptide binding]; other site 318161001804 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 318161001805 dimer interface [polypeptide binding]; other site 318161001806 N-terminal domain interface [polypeptide binding]; other site 318161001807 active site 318161001808 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161001809 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161001810 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 318161001811 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161001812 FMN-binding domain; Region: FMN_bind; pfam04205 318161001813 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318161001814 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161001815 Coenzyme A binding pocket [chemical binding]; other site 318161001816 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 318161001817 FAD binding site [chemical binding]; other site 318161001818 SnoaL-like domain; Region: SnoaL_2; pfam12680 318161001819 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318161001820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161001821 Coenzyme A binding pocket [chemical binding]; other site 318161001822 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 318161001823 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 318161001824 EamA-like transporter family; Region: EamA; pfam00892 318161001825 EamA-like transporter family; Region: EamA; pfam00892 318161001826 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 318161001827 homotrimer interaction site [polypeptide binding]; other site 318161001828 putative active site [active] 318161001829 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 318161001830 putative hydrophobic ligand binding site [chemical binding]; other site 318161001831 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318161001832 amino acid carrier protein; Region: agcS; TIGR00835 318161001833 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 318161001834 inner membrane transport permease; Provisional; Region: PRK15066 318161001835 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 318161001836 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318161001837 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318161001838 Walker A/P-loop; other site 318161001839 ATP binding site [chemical binding]; other site 318161001840 Q-loop/lid; other site 318161001841 ABC transporter signature motif; other site 318161001842 Walker B; other site 318161001843 D-loop; other site 318161001844 H-loop/switch region; other site 318161001845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161001846 active site 318161001847 aromatic acid decarboxylase; Validated; Region: PRK05920 318161001848 Flavoprotein; Region: Flavoprotein; pfam02441 318161001849 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 318161001850 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 318161001851 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 318161001852 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318161001853 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 318161001854 IHF dimer interface [polypeptide binding]; other site 318161001855 IHF - DNA interface [nucleotide binding]; other site 318161001856 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161001857 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001858 active site 318161001859 phosphorylation site [posttranslational modification] 318161001860 intermolecular recognition site; other site 318161001861 dimerization interface [polypeptide binding]; other site 318161001862 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318161001863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001864 active site 318161001865 phosphorylation site [posttranslational modification] 318161001866 intermolecular recognition site; other site 318161001867 dimerization interface [polypeptide binding]; other site 318161001868 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 318161001869 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 318161001870 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 318161001871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001872 active site 318161001873 phosphorylation site [posttranslational modification] 318161001874 intermolecular recognition site; other site 318161001875 dimerization interface [polypeptide binding]; other site 318161001876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161001877 Zn2+ binding site [ion binding]; other site 318161001878 Mg2+ binding site [ion binding]; other site 318161001879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161001880 HAMP domain; Region: HAMP; pfam00672 318161001881 dimerization interface [polypeptide binding]; other site 318161001882 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 318161001883 dimer interface [polypeptide binding]; other site 318161001884 phosphorylation site [posttranslational modification] 318161001885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161001886 ATP binding site [chemical binding]; other site 318161001887 Mg2+ binding site [ion binding]; other site 318161001888 G-X-G motif; other site 318161001889 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161001890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161001891 active site 318161001892 phosphorylation site [posttranslational modification] 318161001893 intermolecular recognition site; other site 318161001894 dimerization interface [polypeptide binding]; other site 318161001895 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 318161001896 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 318161001897 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 318161001898 N-terminal plug; other site 318161001899 ligand-binding site [chemical binding]; other site 318161001900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 318161001901 Protein of unknown function (DUF330); Region: DUF330; pfam03886 318161001902 mce related protein; Region: MCE; pfam02470 318161001903 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 318161001904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161001905 Walker A/P-loop; other site 318161001906 ATP binding site [chemical binding]; other site 318161001907 Q-loop/lid; other site 318161001908 ABC transporter signature motif; other site 318161001909 Walker B; other site 318161001910 D-loop; other site 318161001911 H-loop/switch region; other site 318161001912 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 318161001913 Permease; Region: Permease; pfam02405 318161001914 TraB family; Region: TraB; pfam01963 318161001915 HDOD domain; Region: HDOD; pfam08668 318161001916 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 318161001917 Beta-lactamase; Region: Beta-lactamase; pfam00144 318161001918 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 318161001919 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318161001920 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161001921 Penicillinase repressor; Region: Pencillinase_R; pfam03965 318161001922 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 318161001923 KilA-N domain; Region: KilA-N; pfam04383 318161001924 Predicted membrane protein [Function unknown]; Region: COG2119 318161001925 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 318161001926 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 318161001927 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 318161001928 aromatic amino acid transport protein; Region: araaP; TIGR00837 318161001929 Peptidase S46; Region: Peptidase_S46; pfam10459 318161001930 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 318161001931 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 318161001932 RNA binding surface [nucleotide binding]; other site 318161001933 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 318161001934 pseudouridine synthase; Region: TIGR00093 318161001935 probable active site [active] 318161001936 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 318161001937 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318161001938 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161001939 active site 318161001940 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 318161001941 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 318161001942 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 318161001943 Glutamate binding site [chemical binding]; other site 318161001944 NAD binding site [chemical binding]; other site 318161001945 catalytic residues [active] 318161001946 SH3 domain-containing protein; Provisional; Region: PRK10884 318161001947 Bacterial SH3 domain homologues; Region: SH3b; smart00287 318161001948 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 318161001949 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 318161001950 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 318161001951 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 318161001952 putative active site [active] 318161001953 putative metal binding residues [ion binding]; other site 318161001954 signature motif; other site 318161001955 putative triphosphate binding site [ion binding]; other site 318161001956 Ion transport protein; Region: Ion_trans; pfam00520 318161001957 Ion channel; Region: Ion_trans_2; pfam07885 318161001958 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 318161001959 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 318161001960 spermidine synthase; Provisional; Region: PRK03612 318161001961 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318161001962 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 318161001963 IncA protein; Region: IncA; pfam04156 318161001964 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 318161001965 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318161001966 metal binding triad; other site 318161001967 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318161001968 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318161001969 metal binding triad; other site 318161001970 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318161001971 Domain of unknown function (DUF897); Region: DUF897; cl01312 318161001972 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318161001973 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 318161001974 substrate binding pocket [chemical binding]; other site 318161001975 membrane-bound complex binding site; other site 318161001976 hinge residues; other site 318161001977 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 318161001978 L,D-transpeptidase; Provisional; Region: PRK10190 318161001979 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161001980 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318161001981 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 318161001982 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318161001983 putative acyl-acceptor binding pocket; other site 318161001984 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 318161001985 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 318161001986 putative ribose interaction site [chemical binding]; other site 318161001987 putative ADP binding site [chemical binding]; other site 318161001988 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 318161001989 active site 318161001990 HIGH motif; other site 318161001991 nucleotide binding site [chemical binding]; other site 318161001992 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318161001993 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 318161001994 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161001995 dimer interface [polypeptide binding]; other site 318161001996 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 318161001997 putative CheW interface [polypeptide binding]; other site 318161001998 transcriptional regulator BetI; Validated; Region: PRK00767 318161001999 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161002000 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 318161002001 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 318161002002 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 318161002003 tetrameric interface [polypeptide binding]; other site 318161002004 NAD binding site [chemical binding]; other site 318161002005 catalytic residues [active] 318161002006 choline dehydrogenase; Validated; Region: PRK02106 318161002007 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318161002008 BCCT family transporter; Region: BCCT; cl00569 318161002009 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 318161002010 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318161002011 MarR family; Region: MarR; pfam01047 318161002012 MarR family; Region: MarR_2; cl17246 318161002013 TIGR03899 family protein; Region: TIGR03899 318161002014 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161002015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161002016 putative substrate translocation pore; other site 318161002017 Imelysin; Region: Peptidase_M75; pfam09375 318161002018 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 318161002019 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 318161002020 DNA-J related protein; Region: DNAJ_related; pfam12339 318161002021 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 318161002022 HSP70 interaction site [polypeptide binding]; other site 318161002023 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161002024 active site 318161002025 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318161002026 Peptidase family U32; Region: Peptidase_U32; pfam01136 318161002027 Collagenase; Region: DUF3656; pfam12392 318161002028 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 318161002029 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318161002030 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 318161002031 N-terminal plug; other site 318161002032 ligand-binding site [chemical binding]; other site 318161002033 HDOD domain; Region: HDOD; pfam08668 318161002034 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161002035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161002036 The 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 318161002037 dimerization interface [polypeptide binding]; other site 318161002038 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 318161002039 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 318161002040 THF binding site; other site 318161002041 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 318161002042 substrate binding site [chemical binding]; other site 318161002043 THF binding site; other site 318161002044 zinc-binding site [ion binding]; other site 318161002045 epoxyqueuosine reductase; Region: TIGR00276 318161002046 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 318161002047 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 318161002048 binding surface 318161002049 TPR motif; other site 318161002050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002052 metal binding site [ion binding]; metal-binding site 318161002053 active site 318161002054 I-site; other site 318161002055 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 318161002056 malate dehydrogenase; Provisional; Region: PRK13529 318161002057 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318161002058 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 318161002059 NAD(P) binding site [chemical binding]; other site 318161002060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 318161002061 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 318161002062 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 318161002063 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318161002064 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 318161002065 N-terminal plug; other site 318161002066 ligand-binding site [chemical binding]; other site 318161002067 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318161002068 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318161002069 putative C-terminal domain interface [polypeptide binding]; other site 318161002070 putative GSH binding site (G-site) [chemical binding]; other site 318161002071 putative dimer interface [polypeptide binding]; other site 318161002072 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318161002073 dimer interface [polypeptide binding]; other site 318161002074 N-terminal domain interface [polypeptide binding]; other site 318161002075 substrate binding pocket (H-site) [chemical binding]; other site 318161002076 Predicted transcriptional regulator [Transcription]; Region: COG2944 318161002077 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 318161002078 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 318161002079 PAS domain; Region: PAS_9; pfam13426 318161002080 putative active site [active] 318161002081 heme pocket [chemical binding]; other site 318161002082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002083 I-site; other site 318161002084 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318161002085 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 318161002086 ATP binding site [chemical binding]; other site 318161002087 putative Mg++ binding site [ion binding]; other site 318161002088 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 318161002089 nucleotide binding region [chemical binding]; other site 318161002090 ATP-binding site [chemical binding]; other site 318161002091 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 318161002092 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161002093 S-adenosylmethionine binding site [chemical binding]; other site 318161002094 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 318161002095 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 318161002096 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 318161002097 active site 318161002098 Int/Topo IB signature motif; other site 318161002099 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 318161002100 dimerization domain [polypeptide binding]; other site 318161002101 dimer interface [polypeptide binding]; other site 318161002102 catalytic residues [active] 318161002103 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 318161002104 DHH family; Region: DHH; pfam01368 318161002105 DHHA1 domain; Region: DHHA1; pfam02272 318161002106 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 318161002107 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 318161002108 active site 318161002109 Fe-S metabolism associated domain; Region: SufE; cl00951 318161002110 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318161002111 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 318161002112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161002113 catalytic residue [active] 318161002114 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 318161002115 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318161002116 active site 318161002117 catalytic tetrad [active] 318161002118 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161002119 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161002120 Coenzyme A binding pocket [chemical binding]; other site 318161002121 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 318161002122 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 318161002123 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 318161002124 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 318161002125 RNA/DNA hybrid binding site [nucleotide binding]; other site 318161002126 active site 318161002127 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318161002128 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 318161002129 active site 318161002130 motif I; other site 318161002131 motif II; other site 318161002132 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318161002133 putative catalytic site [active] 318161002134 putative metal binding site [ion binding]; other site 318161002135 putative phosphate binding site [ion binding]; other site 318161002136 Protein of unknown function, DUF606; Region: DUF606; pfam04657 318161002137 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 318161002138 active site 1 [active] 318161002139 dimer interface [polypeptide binding]; other site 318161002140 hexamer interface [polypeptide binding]; other site 318161002141 active site 2 [active] 318161002142 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 318161002143 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318161002144 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 318161002145 C-terminal domain interface [polypeptide binding]; other site 318161002146 GSH binding site (G-site) [chemical binding]; other site 318161002147 dimer interface [polypeptide binding]; other site 318161002148 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318161002149 N-terminal domain interface [polypeptide binding]; other site 318161002150 dimer interface [polypeptide binding]; other site 318161002151 substrate binding pocket (H-site) [chemical binding]; other site 318161002152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161002153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161002154 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 318161002155 putative effector binding pocket; other site 318161002156 dimerization interface [polypeptide binding]; other site 318161002157 ammonium transporter; Region: amt; TIGR00836 318161002158 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002160 metal binding site [ion binding]; metal-binding site 318161002161 active site 318161002162 I-site; other site 318161002163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 318161002164 ACT domain; Region: ACT_3; pfam10000 318161002165 Family description; Region: ACT_7; pfam13840 318161002166 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 318161002167 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 318161002168 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318161002169 Predicted integral membrane protein [Function unknown]; Region: COG5652 318161002170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 318161002171 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 318161002172 AmpG-like permease; Region: 2A0125; TIGR00901 318161002173 muropeptide transporter; Reviewed; Region: ampG; PRK11902 318161002174 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 318161002175 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 318161002176 substrate binding site [chemical binding]; other site 318161002177 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 318161002178 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 318161002179 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 318161002180 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 318161002181 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 318161002182 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 318161002183 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318161002184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161002185 Coenzyme A binding pocket [chemical binding]; other site 318161002186 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 318161002187 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 318161002188 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 318161002189 putative active site [active] 318161002190 metal binding site [ion binding]; metal-binding site 318161002191 Predicted membrane protein [Function unknown]; Region: COG2259 318161002192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161002193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161002194 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 318161002195 putative effector binding pocket; other site 318161002196 dimerization interface [polypeptide binding]; other site 318161002197 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 318161002198 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 318161002199 Walker A/P-loop; other site 318161002200 ATP binding site [chemical binding]; other site 318161002201 Q-loop/lid; other site 318161002202 ABC transporter signature motif; other site 318161002203 Walker B; other site 318161002204 D-loop; other site 318161002205 H-loop/switch region; other site 318161002206 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 318161002207 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 318161002208 ABC-ATPase subunit interface; other site 318161002209 dimer interface [polypeptide binding]; other site 318161002210 putative PBP binding regions; other site 318161002211 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 318161002212 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 318161002213 intersubunit interface [polypeptide binding]; other site 318161002214 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 318161002215 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318161002216 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 318161002217 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318161002218 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318161002219 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 318161002220 N-terminal plug; other site 318161002221 ligand-binding site [chemical binding]; other site 318161002222 Haem utilisation ChuX/HutX; Region: ChuX_HutX; pfam06228 318161002223 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 318161002224 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 318161002225 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318161002226 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 318161002227 RNA binding surface [nucleotide binding]; other site 318161002228 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 318161002229 active site 318161002230 uracil binding [chemical binding]; other site 318161002231 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 318161002232 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 318161002233 active site 318161002234 (T/H)XGH motif; other site 318161002235 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 318161002236 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 318161002237 Lipopolysaccharide-assembly; Region: LptE; cl01125 318161002238 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 318161002239 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 318161002240 HIGH motif; other site 318161002241 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318161002242 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318161002243 active site 318161002244 KMSKS motif; other site 318161002245 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 318161002246 tRNA binding surface [nucleotide binding]; other site 318161002247 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 318161002248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161002249 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 318161002250 dimer interface [polypeptide binding]; other site 318161002251 phosphorylation site [posttranslational modification] 318161002252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161002253 ATP binding site [chemical binding]; other site 318161002254 Mg2+ binding site [ion binding]; other site 318161002255 G-X-G motif; other site 318161002256 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161002257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161002258 active site 318161002259 phosphorylation site [posttranslational modification] 318161002260 intermolecular recognition site; other site 318161002261 dimerization interface [polypeptide binding]; other site 318161002262 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 318161002263 DNA binding site [nucleotide binding] 318161002264 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 318161002265 putative metal dependent hydrolase; Provisional; Region: PRK11598 318161002266 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 318161002267 Sulfatase; Region: Sulfatase; pfam00884 318161002268 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318161002269 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 318161002270 inhibitor binding site; inhibition site 318161002271 catalytic motif [active] 318161002272 catalytic residue [active] 318161002273 Active site flap [active] 318161002274 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 318161002275 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161002276 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318161002277 active site 318161002278 homodimer interface [polypeptide binding]; other site 318161002279 SAM binding site [chemical binding]; other site 318161002280 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002282 metal binding site [ion binding]; metal-binding site 318161002283 active site 318161002284 I-site; other site 318161002285 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 318161002286 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 318161002287 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 318161002288 putative active site [active] 318161002289 catalytic triad [active] 318161002290 putative dimer interface [polypeptide binding]; other site 318161002291 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 318161002292 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 318161002293 Transporter associated domain; Region: CorC_HlyC; smart01091 318161002294 metal-binding heat shock protein; Provisional; Region: PRK00016 318161002295 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 318161002296 PhoH-like protein; Region: PhoH; pfam02562 318161002297 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 318161002298 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 318161002299 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 318161002300 FeS/SAM binding site; other site 318161002301 TRAM domain; Region: TRAM; pfam01938 318161002302 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 318161002303 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 318161002304 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 318161002305 putative active site [active] 318161002306 catalytic residue [active] 318161002307 GTP-binding protein YchF; Reviewed; Region: PRK09601 318161002308 YchF GTPase; Region: YchF; cd01900 318161002309 G1 box; other site 318161002310 GTP/Mg2+ binding site [chemical binding]; other site 318161002311 Switch I region; other site 318161002312 G2 box; other site 318161002313 Switch II region; other site 318161002314 G3 box; other site 318161002315 G4 box; other site 318161002316 G5 box; other site 318161002317 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 318161002318 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318161002319 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 318161002320 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 318161002321 homodimer interface [polypeptide binding]; other site 318161002322 substrate-cofactor binding pocket; other site 318161002323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161002324 catalytic residue [active] 318161002325 YcaO domain protein; Region: TIGR03549 318161002326 OsmC-like protein; Region: OsmC; pfam02566 318161002327 YcaO-like family; Region: YcaO; pfam02624 318161002328 arginine repressor; Provisional; Region: PRK05066 318161002329 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 318161002330 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 318161002331 malate dehydrogenase; Provisional; Region: PRK05086 318161002332 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 318161002333 NAD binding site [chemical binding]; other site 318161002334 dimerization interface [polypeptide binding]; other site 318161002335 Substrate binding site [chemical binding]; other site 318161002336 dihydromonapterin reductase; Provisional; Region: PRK06483 318161002337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161002338 NAD(P) binding site [chemical binding]; other site 318161002339 active site 318161002340 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 318161002341 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 318161002342 Cell division protein ZapA; Region: ZapA; pfam05164 318161002343 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 318161002344 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 318161002345 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 318161002346 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 318161002347 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 318161002348 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 318161002349 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 318161002350 glycine cleavage system protein H; Provisional; Region: PRK13380 318161002351 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 318161002352 lipoyl attachment site [posttranslational modification]; other site 318161002353 glycine dehydrogenase; Provisional; Region: PRK05367 318161002354 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 318161002355 tetramer interface [polypeptide binding]; other site 318161002356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161002357 catalytic residue [active] 318161002358 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 318161002359 tetramer interface [polypeptide binding]; other site 318161002360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161002361 catalytic residue [active] 318161002362 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 318161002363 Fic/DOC family; Region: Fic; pfam02661 318161002364 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 318161002365 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 318161002366 hypothetical protein; Provisional; Region: PRK07505 318161002367 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 318161002368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161002369 putative substrate translocation pore; other site 318161002370 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 318161002371 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 318161002372 Amidohydrolase; Region: Amidohydro_4; pfam13147 318161002373 active site 318161002374 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 318161002375 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161002376 active site 318161002377 phosphorylation site [posttranslational modification] 318161002378 intermolecular recognition site; other site 318161002379 dimerization interface [polypeptide binding]; other site 318161002380 LytTr DNA-binding domain; Region: LytTR; smart00850 318161002381 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 318161002382 Histidine kinase; Region: His_kinase; pfam06580 318161002383 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161002384 ATP binding site [chemical binding]; other site 318161002385 Mg2+ binding site [ion binding]; other site 318161002386 G-X-G motif; other site 318161002387 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 318161002388 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161002389 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 318161002390 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 318161002391 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 318161002392 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 318161002393 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 318161002394 Sporulation related domain; Region: SPOR; pfam05036 318161002395 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318161002396 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161002397 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161002398 catalytic residue [active] 318161002399 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 318161002400 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 318161002401 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 318161002402 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 318161002403 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 318161002404 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 318161002405 Helix-turn-helix domain; Region: HTH_17; pfam12728 318161002406 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 318161002407 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161002408 Walker A/P-loop; other site 318161002409 ATP binding site [chemical binding]; other site 318161002410 Q-loop/lid; other site 318161002411 ABC transporter signature motif; other site 318161002412 Walker B; other site 318161002413 D-loop; other site 318161002414 H-loop/switch region; other site 318161002415 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 318161002416 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161002417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161002418 Walker A/P-loop; other site 318161002419 ATP binding site [chemical binding]; other site 318161002420 Q-loop/lid; other site 318161002421 ABC transporter signature motif; other site 318161002422 Walker B; other site 318161002423 D-loop; other site 318161002424 H-loop/switch region; other site 318161002425 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161002426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161002427 dimer interface [polypeptide binding]; other site 318161002428 putative CheW interface [polypeptide binding]; other site 318161002429 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 318161002430 putative FMN binding site [chemical binding]; other site 318161002431 putative dimer interface [polypeptide binding]; other site 318161002432 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318161002433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161002434 Coenzyme A binding pocket [chemical binding]; other site 318161002435 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318161002436 lipoyl synthase; Provisional; Region: PRK05481 318161002437 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 318161002438 FeS/SAM binding site; other site 318161002439 lipoate-protein ligase B; Provisional; Region: PRK14342 318161002440 hypothetical protein; Provisional; Region: PRK04998 318161002441 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 318161002442 multifunctional aminopeptidase A; Provisional; Region: PRK00913 318161002443 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 318161002444 interface (dimer of trimers) [polypeptide binding]; other site 318161002445 Substrate-binding/catalytic site; other site 318161002446 Zn-binding sites [ion binding]; other site 318161002447 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 318161002448 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318161002449 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 318161002450 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 318161002451 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 318161002452 HDOD domain; Region: HDOD; pfam08668 318161002453 RDD family; Region: RDD; pfam06271 318161002454 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 318161002455 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161002456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161002457 Coenzyme A binding pocket [chemical binding]; other site 318161002458 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318161002459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161002460 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161002461 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161002462 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318161002463 Zn binding site [ion binding]; other site 318161002464 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318161002465 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 318161002466 substrate binding pocket [chemical binding]; other site 318161002467 membrane-bound complex binding site; other site 318161002468 hinge residues; other site 318161002469 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 318161002470 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 318161002471 putative catalytic residues [active] 318161002472 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318161002473 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 318161002474 ATP binding site [chemical binding]; other site 318161002475 Mg++ binding site [ion binding]; other site 318161002476 motif III; other site 318161002477 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 318161002478 nucleotide binding region [chemical binding]; other site 318161002479 ATP-binding site [chemical binding]; other site 318161002480 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318161002481 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318161002482 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 318161002483 active site 318161002484 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 318161002485 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 318161002486 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; cl00279 318161002487 active site 318161002488 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 318161002489 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318161002490 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161002491 Uncharacterized conserved protein [Function unknown]; Region: COG2353 318161002492 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 318161002493 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 318161002494 ATP binding site [chemical binding]; other site 318161002495 Mg++ binding site [ion binding]; other site 318161002496 motif III; other site 318161002497 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 318161002498 nucleotide binding region [chemical binding]; other site 318161002499 ATP-binding site [chemical binding]; other site 318161002500 CAAX protease self-immunity; Region: Abi; pfam02517 318161002501 Predicted membrane protein [Function unknown]; Region: COG4709 318161002502 Putative sensor; Region: Sensor; pfam13796 318161002503 Predicted transcriptional regulators [Transcription]; Region: COG1695 318161002504 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 318161002505 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161002506 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161002507 S-adenosylmethionine binding site [chemical binding]; other site 318161002508 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 318161002509 active site 318161002510 catalytic residues [active] 318161002511 metal binding site [ion binding]; metal-binding site 318161002512 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161002513 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161002514 S-adenosylmethionine binding site [chemical binding]; other site 318161002515 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 318161002516 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318161002517 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 318161002518 N-terminal plug; other site 318161002519 ligand-binding site [chemical binding]; other site 318161002520 RecX family; Region: RecX; pfam02631 318161002521 RecX family; Region: RecX; pfam02631 318161002522 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318161002523 Zn binding site [ion binding]; other site 318161002524 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 318161002525 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318161002526 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_27; cd04686 318161002527 nudix motif; other site 318161002528 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 318161002529 Carbon starvation protein CstA; Region: CstA; pfam02554 318161002530 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 318161002531 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 318161002532 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318161002533 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 318161002534 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 318161002535 tetramerization interface [polypeptide binding]; other site 318161002536 NAD(P) binding site [chemical binding]; other site 318161002537 catalytic residues [active] 318161002538 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 318161002539 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 318161002540 inhibitor-cofactor binding pocket; inhibition site 318161002541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161002542 catalytic residue [active] 318161002543 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 318161002544 dimerization interface [polypeptide binding]; other site 318161002545 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161002546 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161002547 dimer interface [polypeptide binding]; other site 318161002548 putative CheW interface [polypeptide binding]; other site 318161002549 Avidin family; Region: Avidin; pfam01382 318161002550 Cupin domain; Region: Cupin_2; pfam07883 318161002551 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 318161002552 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 318161002553 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 318161002554 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161002555 active site 318161002556 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 318161002557 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 318161002558 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 318161002559 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 318161002560 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 318161002561 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 318161002562 tRNA; other site 318161002563 putative tRNA binding site [nucleotide binding]; other site 318161002564 putative NADP binding site [chemical binding]; other site 318161002565 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 318161002566 peptide chain release factor 1; Validated; Region: prfA; PRK00591 318161002567 This domain is found in peptide chain release factors; Region: PCRF; smart00937 318161002568 RF-1 domain; Region: RF-1; pfam00472 318161002569 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 318161002570 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161002571 S-adenosylmethionine binding site [chemical binding]; other site 318161002572 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 318161002573 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 318161002574 Tetratricopeptide repeat; Region: TPR_9; pfam13371 318161002575 Protein of unknown function (DUF819); Region: DUF819; cl02317 318161002576 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318161002577 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 318161002578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161002579 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161002580 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318161002581 DNA-binding site [nucleotide binding]; DNA binding site 318161002582 RNA-binding motif; other site 318161002583 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 318161002584 SIR2-like domain; Region: SIR2_2; pfam13289 318161002585 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 318161002586 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 318161002587 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 318161002588 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 318161002589 ligand binding site [chemical binding]; other site 318161002590 homodimer interface [polypeptide binding]; other site 318161002591 NAD(P) binding site [chemical binding]; other site 318161002592 trimer interface B [polypeptide binding]; other site 318161002593 trimer interface A [polypeptide binding]; other site 318161002594 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 318161002595 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 318161002596 Flavodoxin; Region: Flavodoxin_1; pfam00258 318161002597 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; cd06199 318161002598 FAD binding pocket [chemical binding]; other site 318161002599 FAD binding motif [chemical binding]; other site 318161002600 catalytic residues [active] 318161002601 NAD binding pocket [chemical binding]; other site 318161002602 phosphate binding motif [ion binding]; other site 318161002603 beta-alpha-beta structure motif; other site 318161002604 sulfite reductase subunit beta; Provisional; Region: PRK13504 318161002605 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318161002606 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318161002607 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 318161002608 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 318161002609 Active Sites [active] 318161002610 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161002611 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 318161002612 active site 318161002613 metal binding site [ion binding]; metal-binding site 318161002614 MAPEG family; Region: MAPEG; cl09190 318161002615 azurin; Region: azurin; TIGR02695 318161002616 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318161002617 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 318161002618 substrate binding site [chemical binding]; other site 318161002619 dimer interface [polypeptide binding]; other site 318161002620 ATP binding site [chemical binding]; other site 318161002621 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 318161002622 active site 318161002623 tetramer interface [polypeptide binding]; other site 318161002624 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 318161002625 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 318161002626 PAS domain; Region: PAS_9; pfam13426 318161002627 putative active site [active] 318161002628 heme pocket [chemical binding]; other site 318161002629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002631 metal binding site [ion binding]; metal-binding site 318161002632 active site 318161002633 I-site; other site 318161002634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161002635 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 318161002636 DNA binding site [nucleotide binding] 318161002637 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 318161002638 binding surface 318161002639 TPR motif; other site 318161002640 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 318161002641 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161002642 putative substrate translocation pore; other site 318161002643 POT family; Region: PTR2; cl17359 318161002644 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 318161002645 oxidative stress defense protein; Provisional; Region: PRK11087 318161002646 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 318161002647 Amidohydrolase family; Region: Amidohydro_3; pfam07969 318161002648 active site 318161002649 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318161002650 active site 318161002651 SAM binding site [chemical binding]; other site 318161002652 homodimer interface [polypeptide binding]; other site 318161002653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002655 metal binding site [ion binding]; metal-binding site 318161002656 active site 318161002657 I-site; other site 318161002658 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318161002659 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318161002660 Protein of unknown function (DUF3103); Region: DUF3103; pfam11301 318161002661 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318161002662 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 318161002663 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 318161002664 active site triad [active] 318161002665 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 318161002666 dimerization interface [polypeptide binding]; other site 318161002667 substrate binding site [chemical binding]; other site 318161002668 active site 318161002669 calcium binding site [ion binding]; other site 318161002670 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 318161002671 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 318161002672 active site 318161002673 SAM binding site [chemical binding]; other site 318161002674 homodimer interface [polypeptide binding]; other site 318161002675 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 318161002676 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 318161002677 Active Sites [active] 318161002678 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 318161002679 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 318161002680 CysD dimerization site [polypeptide binding]; other site 318161002681 G1 box; other site 318161002682 putative GEF interaction site [polypeptide binding]; other site 318161002683 GTP/Mg2+ binding site [chemical binding]; other site 318161002684 Switch I region; other site 318161002685 G2 box; other site 318161002686 G3 box; other site 318161002687 Switch II region; other site 318161002688 G4 box; other site 318161002689 G5 box; other site 318161002690 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 318161002691 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 318161002692 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 318161002693 TrkA-C domain; Region: TrkA_C; pfam02080 318161002694 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318161002695 TrkA-C domain; Region: TrkA_C; pfam02080 318161002696 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 318161002697 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 318161002698 ligand-binding site [chemical binding]; other site 318161002699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 318161002700 MOSC domain; Region: MOSC; pfam03473 318161002701 3-alpha domain; Region: 3-alpha; pfam03475 318161002702 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 318161002703 hypothetical protein; Provisional; Region: PRK05409 318161002704 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 318161002705 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 318161002706 Curli assembly protein CsgE; Region: CsgE; pfam10627 318161002707 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 318161002708 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 318161002709 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002711 metal binding site [ion binding]; metal-binding site 318161002712 active site 318161002713 I-site; other site 318161002714 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318161002715 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161002716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161002717 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 318161002718 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 318161002719 NAD(P) binding site [chemical binding]; other site 318161002720 catalytic residues [active] 318161002721 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 318161002722 Ligand Binding Site [chemical binding]; other site 318161002723 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 318161002724 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 318161002725 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 318161002726 BolA-like protein; Region: BolA; cl00386 318161002727 S-ribosylhomocysteinase; Provisional; Region: PRK02260 318161002728 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 318161002729 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 318161002730 E3 interaction surface; other site 318161002731 lipoyl attachment site [posttranslational modification]; other site 318161002732 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 318161002733 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 318161002734 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 318161002735 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 318161002736 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 318161002737 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 318161002738 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 318161002739 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 318161002740 catalytic loop [active] 318161002741 iron binding site [ion binding]; other site 318161002742 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 318161002743 FAD binding pocket [chemical binding]; other site 318161002744 FAD binding motif [chemical binding]; other site 318161002745 phosphate binding motif [ion binding]; other site 318161002746 beta-alpha-beta structure motif; other site 318161002747 NAD binding pocket [chemical binding]; other site 318161002748 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 318161002749 ApbE family; Region: ApbE; pfam02424 318161002750 Protein of unknown function (DUF539); Region: DUF539; cl01129 318161002751 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318161002752 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318161002753 heme binding site [chemical binding]; other site 318161002754 ferroxidase pore; other site 318161002755 ferroxidase diiron center [ion binding]; other site 318161002756 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 318161002757 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 318161002758 heme binding site [chemical binding]; other site 318161002759 ferroxidase pore; other site 318161002760 ferroxidase diiron center [ion binding]; other site 318161002761 Peptidase family M48; Region: Peptidase_M48; pfam01435 318161002762 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318161002763 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 318161002764 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161002765 dihydrodipicolinate reductase; Provisional; Region: PRK00048 318161002766 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 318161002767 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 318161002768 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 318161002769 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 318161002770 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 318161002771 catalytic site [active] 318161002772 subunit interface [polypeptide binding]; other site 318161002773 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 318161002774 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318161002775 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 318161002776 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 318161002777 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318161002778 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318161002779 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 318161002780 IMP binding site; other site 318161002781 dimer interface [polypeptide binding]; other site 318161002782 interdomain contacts; other site 318161002783 partial ornithine binding site; other site 318161002784 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 318161002785 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 318161002786 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 318161002787 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 318161002788 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 318161002789 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161002790 S-adenosylmethionine binding site [chemical binding]; other site 318161002791 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 318161002792 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 318161002793 Walker A motif; other site 318161002794 ATP binding site [chemical binding]; other site 318161002795 Walker B motif; other site 318161002796 arginine finger; other site 318161002797 Peptidase family M41; Region: Peptidase_M41; pfam01434 318161002798 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 318161002799 dihydropteroate synthase; Region: DHPS; TIGR01496 318161002800 substrate binding pocket [chemical binding]; other site 318161002801 dimer interface [polypeptide binding]; other site 318161002802 inhibitor binding site; inhibition site 318161002803 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 318161002804 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 318161002805 active site 318161002806 substrate binding site [chemical binding]; other site 318161002807 metal binding site [ion binding]; metal-binding site 318161002808 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 318161002809 triosephosphate isomerase; Provisional; Region: PRK14567 318161002810 substrate binding site [chemical binding]; other site 318161002811 dimer interface [polypeptide binding]; other site 318161002812 catalytic triad [active] 318161002813 Preprotein translocase SecG subunit; Region: SecG; pfam03840 318161002814 ribosome maturation protein RimP; Reviewed; Region: PRK00092 318161002815 Sm and related proteins; Region: Sm_like; cl00259 318161002816 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 318161002817 putative oligomer interface [polypeptide binding]; other site 318161002818 putative RNA binding site [nucleotide binding]; other site 318161002819 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 318161002820 NusA N-terminal domain; Region: NusA_N; pfam08529 318161002821 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 318161002822 RNA binding site [nucleotide binding]; other site 318161002823 homodimer interface [polypeptide binding]; other site 318161002824 NusA-like KH domain; Region: KH_5; pfam13184 318161002825 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 318161002826 G-X-X-G motif; other site 318161002827 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318161002828 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 318161002829 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318161002830 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 318161002831 translation initiation factor IF-2; Region: IF-2; TIGR00487 318161002832 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 318161002833 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 318161002834 G1 box; other site 318161002835 putative GEF interaction site [polypeptide binding]; other site 318161002836 GTP/Mg2+ binding site [chemical binding]; other site 318161002837 Switch I region; other site 318161002838 G2 box; other site 318161002839 G3 box; other site 318161002840 Switch II region; other site 318161002841 G4 box; other site 318161002842 G5 box; other site 318161002843 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 318161002844 Translation-initiation factor 2; Region: IF-2; pfam11987 318161002845 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 318161002846 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 318161002847 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 318161002848 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 318161002849 RNA binding site [nucleotide binding]; other site 318161002850 active site 318161002851 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 318161002852 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 318161002853 16S/18S rRNA binding site [nucleotide binding]; other site 318161002854 S13e-L30e interaction site [polypeptide binding]; other site 318161002855 25S rRNA binding site [nucleotide binding]; other site 318161002856 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 318161002857 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 318161002858 metal binding site [ion binding]; metal-binding site 318161002859 dimer interface [polypeptide binding]; other site 318161002860 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 318161002861 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318161002862 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161002863 active site 318161002864 Predicted flavoprotein [General function prediction only]; Region: COG0431 318161002865 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318161002866 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 318161002867 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318161002868 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 318161002869 calcium binding site 2 [ion binding]; other site 318161002870 active site 318161002871 catalytic triad [active] 318161002872 calcium binding site 1 [ion binding]; other site 318161002873 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318161002874 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318161002875 Protein of unknown function, DUF599; Region: DUF599; pfam04654 318161002876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161002877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002878 metal binding site [ion binding]; metal-binding site 318161002879 active site 318161002880 I-site; other site 318161002881 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 318161002882 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 318161002883 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 318161002884 RNase E interface [polypeptide binding]; other site 318161002885 trimer interface [polypeptide binding]; other site 318161002886 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 318161002887 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 318161002888 RNase E interface [polypeptide binding]; other site 318161002889 trimer interface [polypeptide binding]; other site 318161002890 active site 318161002891 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 318161002892 putative nucleic acid binding region [nucleotide binding]; other site 318161002893 G-X-X-G motif; other site 318161002894 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 318161002895 RNA binding site [nucleotide binding]; other site 318161002896 domain interface; other site 318161002897 lipoprotein NlpI; Provisional; Region: PRK11189 318161002898 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 318161002899 binding surface 318161002900 TPR motif; other site 318161002901 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 318161002902 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 318161002903 G1 box; other site 318161002904 putative GEF interaction site [polypeptide binding]; other site 318161002905 GTP/Mg2+ binding site [chemical binding]; other site 318161002906 Switch I region; other site 318161002907 G2 box; other site 318161002908 G3 box; other site 318161002909 Switch II region; other site 318161002910 G4 box; other site 318161002911 G5 box; other site 318161002912 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 318161002913 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318161002914 active site 318161002915 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 318161002916 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 318161002917 Nucleoside recognition; Region: Gate; pfam07670 318161002918 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 318161002919 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 318161002920 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 318161002921 intersubunit interface [polypeptide binding]; other site 318161002922 active site 318161002923 catalytic residue [active] 318161002924 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 318161002925 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318161002926 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318161002927 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 318161002928 phosphopentomutase; Provisional; Region: PRK05362 318161002929 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 318161002930 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 318161002931 Predicted peptidase [General function prediction only]; Region: COG4099 318161002932 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 318161002933 Chitin binding domain; Region: Chitin_bind_3; pfam03067 318161002934 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 318161002935 phosphoserine phosphatase SerB; Region: serB; TIGR00338 318161002936 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 318161002937 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 318161002938 motif II; other site 318161002939 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 318161002940 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 318161002941 PilZ domain; Region: PilZ; pfam07238 318161002942 PilZ domain; Region: PilZ; pfam07238 318161002943 DNA repair protein RadA; Provisional; Region: PRK11823 318161002944 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 318161002945 Walker A motif/ATP binding site; other site 318161002946 ATP binding site [chemical binding]; other site 318161002947 Walker B motif; other site 318161002948 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 318161002949 PilZ domain; Region: PilZ; pfam07238 318161002950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 318161002951 Nucleoside recognition; Region: Gate; pfam07670 318161002952 putative protease; Provisional; Region: PRK15447 318161002953 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318161002954 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 318161002955 Peptidase family U32; Region: Peptidase_U32; pfam01136 318161002956 SCP-2 sterol transfer family; Region: SCP2; cl01225 318161002957 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 318161002958 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 318161002959 putative active site [active] 318161002960 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 318161002961 TPR motif; other site 318161002962 binding surface 318161002963 TPR repeat; Region: TPR_11; pfam13414 318161002964 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318161002965 putative protease; Provisional; Region: PRK15452 318161002966 Peptidase family U32; Region: Peptidase_U32; pfam01136 318161002967 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 318161002968 FAD binding pocket [chemical binding]; other site 318161002969 conserved FAD binding motif [chemical binding]; other site 318161002970 phosphate binding motif [ion binding]; other site 318161002971 HDOD domain; Region: HDOD; pfam08668 318161002972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161002973 metal binding site [ion binding]; metal-binding site 318161002974 active site 318161002975 I-site; other site 318161002976 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 318161002977 FRG domain; Region: FRG; pfam08867 318161002978 putative transposase OrfB; Reviewed; Region: PHA02517 318161002979 HTH-like domain; Region: HTH_21; pfam13276 318161002980 Integrase core domain; Region: rve; pfam00665 318161002981 Integrase core domain; Region: rve_2; pfam13333 318161002982 Transposase; Region: HTH_Tnp_1; pfam01527 318161002983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161002984 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 318161002985 active site 318161002986 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161002987 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 318161002988 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 318161002989 AsnC family; Region: AsnC_trans_reg; pfam01037 318161002990 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 318161002991 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 318161002992 inhibitor-cofactor binding pocket; inhibition site 318161002993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161002994 catalytic residue [active] 318161002995 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 318161002996 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 318161002997 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 318161002998 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 318161002999 NAD(P) binding site [chemical binding]; other site 318161003000 catalytic residues [active] 318161003001 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 318161003002 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161003003 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 318161003004 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 318161003005 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318161003006 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 318161003007 short chain dehydrogenase; Provisional; Region: PRK06500 318161003008 classical (c) SDRs; Region: SDR_c; cd05233 318161003009 NAD(P) binding site [chemical binding]; other site 318161003010 active site 318161003011 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161003012 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 318161003013 non-specific DNA binding site [nucleotide binding]; other site 318161003014 salt bridge; other site 318161003015 sequence-specific DNA binding site [nucleotide binding]; other site 318161003016 Cupin domain; Region: Cupin_2; cl17218 318161003017 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 318161003018 nucleotide binding site/active site [active] 318161003019 HIT family signature motif; other site 318161003020 catalytic residue [active] 318161003021 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161003022 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161003023 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 318161003024 acyl-activating enzyme (AAE) consensus motif; other site 318161003025 AMP binding site [chemical binding]; other site 318161003026 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 318161003027 putative NAD(P) binding site [chemical binding]; other site 318161003028 active site 318161003029 putative substrate binding site [chemical binding]; other site 318161003030 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318161003031 TAP-like protein; Region: Abhydrolase_4; pfam08386 318161003032 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 318161003033 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318161003034 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 318161003035 acyl-activating enzyme (AAE) consensus motif; other site 318161003036 putative AMP binding site [chemical binding]; other site 318161003037 putative active site [active] 318161003038 putative CoA binding site [chemical binding]; other site 318161003039 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 318161003040 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161003041 substrate binding pocket [chemical binding]; other site 318161003042 membrane-bound complex binding site; other site 318161003043 hinge residues; other site 318161003044 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 318161003045 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 318161003046 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 318161003047 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 318161003048 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 318161003049 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 318161003050 PLD-like domain; Region: PLDc_2; pfam13091 318161003051 putative active site [active] 318161003052 catalytic site [active] 318161003053 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 318161003054 PLD-like domain; Region: PLDc_2; pfam13091 318161003055 putative active site [active] 318161003056 catalytic site [active] 318161003057 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 318161003058 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318161003059 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 318161003060 Walker A/P-loop; other site 318161003061 ATP binding site [chemical binding]; other site 318161003062 Q-loop/lid; other site 318161003063 ABC transporter signature motif; other site 318161003064 Walker B; other site 318161003065 D-loop; other site 318161003066 H-loop/switch region; other site 318161003067 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 318161003068 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161003069 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 318161003070 HutD; Region: HutD; pfam05962 318161003071 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 318161003072 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 318161003073 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 318161003074 S-adenosylmethionine synthetase; Validated; Region: PRK05250 318161003075 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 318161003076 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 318161003077 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 318161003078 transketolase; Reviewed; Region: PRK12753 318161003079 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 318161003080 TPP-binding site [chemical binding]; other site 318161003081 dimer interface [polypeptide binding]; other site 318161003082 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 318161003083 PYR/PP interface [polypeptide binding]; other site 318161003084 dimer interface [polypeptide binding]; other site 318161003085 TPP binding site [chemical binding]; other site 318161003086 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318161003087 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 318161003088 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318161003089 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318161003090 Phosphoglycerate kinase; Region: PGK; pfam00162 318161003091 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 318161003092 substrate binding site [chemical binding]; other site 318161003093 hinge regions; other site 318161003094 ADP binding site [chemical binding]; other site 318161003095 catalytic site [active] 318161003096 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 318161003097 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 318161003098 intersubunit interface [polypeptide binding]; other site 318161003099 active site 318161003100 zinc binding site [ion binding]; other site 318161003101 Na+ binding site [ion binding]; other site 318161003102 Protein of unknown function, DUF481; Region: DUF481; pfam04338 318161003103 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161003104 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161003105 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 318161003106 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 318161003107 active site 318161003108 Zn binding site [ion binding]; other site 318161003109 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318161003110 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 318161003111 RNA binding surface [nucleotide binding]; other site 318161003112 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 318161003113 active site 318161003114 uracil binding [chemical binding]; other site 318161003115 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161003116 HAMP domain; Region: HAMP; pfam00672 318161003117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161003118 dimer interface [polypeptide binding]; other site 318161003119 putative CheW interface [polypeptide binding]; other site 318161003120 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 318161003121 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318161003122 active site 318161003123 dimer interface [polypeptide binding]; other site 318161003124 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318161003125 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318161003126 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 318161003127 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 318161003128 Fatty acyltransferase-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: fatty_acyltransferase_like; cd01846 318161003129 active site 318161003130 catalytic triad [active] 318161003131 oxyanion hole [active] 318161003132 lipase chaperone; Provisional; Region: PRK01294 318161003133 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 318161003134 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318161003135 Lipase (class 2); Region: Lipase_2; pfam01674 318161003136 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 318161003137 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161003138 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161003139 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 318161003140 putative effector binding pocket; other site 318161003141 dimerization interface [polypeptide binding]; other site 318161003142 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 318161003143 Cytochrome c; Region: Cytochrom_C; pfam00034 318161003144 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318161003145 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318161003146 Cytochrome c; Region: Cytochrom_C; pfam00034 318161003147 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318161003148 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318161003149 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318161003150 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318161003151 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318161003152 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318161003153 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 318161003154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161003155 Coenzyme A binding pocket [chemical binding]; other site 318161003156 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318161003157 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 318161003158 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 318161003159 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318161003160 Cupin domain; Region: Cupin_2; cl17218 318161003161 Uncharacterized conserved protein [Function unknown]; Region: COG4748 318161003162 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318161003163 SEC-C motif; Region: SEC-C; pfam02810 318161003164 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 318161003165 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 318161003166 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 318161003167 substrate binding pocket [chemical binding]; other site 318161003168 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 318161003169 B12 binding site [chemical binding]; other site 318161003170 cobalt ligand [ion binding]; other site 318161003171 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 318161003172 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 318161003173 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 318161003174 Walker A/P-loop; other site 318161003175 ATP binding site [chemical binding]; other site 318161003176 Q-loop/lid; other site 318161003177 ABC transporter signature motif; other site 318161003178 Walker B; other site 318161003179 D-loop; other site 318161003180 H-loop/switch region; other site 318161003181 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 318161003182 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 318161003183 ABC-ATPase subunit interface; other site 318161003184 dimer interface [polypeptide binding]; other site 318161003185 putative PBP binding regions; other site 318161003186 cobalamin synthase; Reviewed; Region: cobS; PRK00235 318161003187 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 318161003188 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 318161003189 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 318161003190 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 318161003191 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318161003192 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 318161003193 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161003194 Transposase [DNA replication, recombination, and repair]; Region: COG5433 318161003195 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 318161003196 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 318161003197 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 318161003198 NAD binding site [chemical binding]; other site 318161003199 active site 318161003200 integron integrase; Region: integrase_gron; TIGR02249 318161003201 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 318161003202 active site 318161003203 DNA binding site [nucleotide binding] 318161003204 Int/Topo IB signature motif; other site 318161003205 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 318161003206 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318161003207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161003208 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161003209 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161003210 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 318161003211 Putative transposase; Region: Y2_Tnp; pfam04986 318161003212 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 318161003213 active site 318161003214 Int/Topo IB signature motif; other site 318161003215 DNA binding site [nucleotide binding] 318161003216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161003217 HTH-like domain; Region: HTH_21; pfam13276 318161003218 Integrase core domain; Region: rve; pfam00665 318161003219 Integrase core domain; Region: rve_3; pfam13683 318161003220 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 318161003221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161003222 Walker A/P-loop; other site 318161003223 ATP binding site [chemical binding]; other site 318161003224 Q-loop/lid; other site 318161003225 ABC transporter signature motif; other site 318161003226 Walker B; other site 318161003227 D-loop; other site 318161003228 H-loop/switch region; other site 318161003229 ABC transporter; Region: ABC_tran_2; pfam12848 318161003230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161003231 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 318161003232 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 318161003233 dimer interface [polypeptide binding]; other site 318161003234 active site 318161003235 glycine-pyridoxal phosphate binding site [chemical binding]; other site 318161003236 folate binding site [chemical binding]; other site 318161003237 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 318161003238 ATP cone domain; Region: ATP-cone; pfam03477 318161003239 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 318161003240 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 318161003241 catalytic motif [active] 318161003242 Zn binding site [ion binding]; other site 318161003243 RibD C-terminal domain; Region: RibD_C; cl17279 318161003244 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 318161003245 Lumazine binding domain; Region: Lum_binding; pfam00677 318161003246 Lumazine binding domain; Region: Lum_binding; pfam00677 318161003247 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 318161003248 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 318161003249 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 318161003250 dimerization interface [polypeptide binding]; other site 318161003251 active site 318161003252 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 318161003253 homopentamer interface [polypeptide binding]; other site 318161003254 active site 318161003255 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 318161003256 putative RNA binding site [nucleotide binding]; other site 318161003257 thiamine monophosphate kinase; Provisional; Region: PRK05731 318161003258 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 318161003259 ATP binding site [chemical binding]; other site 318161003260 dimerization interface [polypeptide binding]; other site 318161003261 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 318161003262 tetramer interfaces [polypeptide binding]; other site 318161003263 binuclear metal-binding site [ion binding]; other site 318161003264 recombination and repair protein; Provisional; Region: PRK10869 318161003265 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 318161003266 Walker A/P-loop; other site 318161003267 ATP binding site [chemical binding]; other site 318161003268 Q-loop/lid; other site 318161003269 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 318161003270 ABC transporter signature motif; other site 318161003271 Walker B; other site 318161003272 D-loop; other site 318161003273 H-loop/switch region; other site 318161003274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 318161003275 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 318161003276 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161003277 Coenzyme A binding pocket [chemical binding]; other site 318161003278 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318161003279 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 318161003280 B12 binding site [chemical binding]; other site 318161003281 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 318161003282 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 318161003283 Transglycosylase; Region: Transgly; cl17702 318161003284 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161003285 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 318161003286 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161003287 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161003288 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 318161003289 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 318161003290 tetramer interface [polypeptide binding]; other site 318161003291 active site 318161003292 Mg2+/Mn2+ binding site [ion binding]; other site 318161003293 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 318161003294 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 318161003295 active site 318161003296 metal-binding site 318161003297 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318161003298 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 318161003299 PYR/PP interface [polypeptide binding]; other site 318161003300 dimer interface [polypeptide binding]; other site 318161003301 TPP binding site [chemical binding]; other site 318161003302 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 318161003303 TPP-binding site; other site 318161003304 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 318161003305 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 318161003306 active site 318161003307 metal-binding site 318161003308 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 318161003309 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161003310 catalytic residue [active] 318161003311 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 318161003312 nucleotide binding site [chemical binding]; other site 318161003313 substrate binding site [chemical binding]; other site 318161003314 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 318161003315 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 318161003316 active site 318161003317 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 318161003318 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 318161003319 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 318161003320 FeS/SAM binding site; other site 318161003321 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 318161003322 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 318161003323 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 318161003324 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 318161003325 Beta-lactamase; Region: Beta-lactamase; pfam00144 318161003326 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 318161003327 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161003328 Transposase [DNA replication, recombination, and repair]; Region: COG5433 318161003329 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 318161003330 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 318161003331 Sulfatase; Region: Sulfatase; cl17466 318161003332 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318161003333 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318161003334 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 318161003335 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161003336 acyl-activating enzyme (AAE) consensus motif; other site 318161003337 AMP binding site [chemical binding]; other site 318161003338 Condensation domain; Region: Condensation; pfam00668 318161003339 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161003340 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161003341 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161003342 acyl-activating enzyme (AAE) consensus motif; other site 318161003343 AMP binding site [chemical binding]; other site 318161003344 active site 318161003345 CoA binding site [chemical binding]; other site 318161003346 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161003347 Condensation domain; Region: Condensation; pfam00668 318161003348 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161003349 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 318161003350 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161003351 acyl-activating enzyme (AAE) consensus motif; other site 318161003352 AMP binding site [chemical binding]; other site 318161003353 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161003354 Condensation domain; Region: Condensation; pfam00668 318161003355 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161003356 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161003357 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 318161003358 acyl-activating enzyme (AAE) consensus motif; other site 318161003359 AMP binding site [chemical binding]; other site 318161003360 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161003361 Condensation domain; Region: Condensation; pfam00668 318161003362 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 318161003363 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161003364 acyl-activating enzyme (AAE) consensus motif; other site 318161003365 AMP binding site [chemical binding]; other site 318161003366 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318161003367 Transposase; Region: HTH_Tnp_1; pfam01527 318161003368 gamma-glutamyl kinase; Provisional; Region: PRK05429 318161003369 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 318161003370 nucleotide binding site [chemical binding]; other site 318161003371 homotetrameric interface [polypeptide binding]; other site 318161003372 putative phosphate binding site [ion binding]; other site 318161003373 putative allosteric binding site; other site 318161003374 PUA domain; Region: PUA; pfam01472 318161003375 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 318161003376 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 318161003377 nucleotide binding site [chemical binding]; other site 318161003378 chaperone protein DnaJ; Provisional; Region: PRK10767 318161003379 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 318161003380 HSP70 interaction site [polypeptide binding]; other site 318161003381 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 318161003382 substrate binding site [polypeptide binding]; other site 318161003383 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 318161003384 Zn binding sites [ion binding]; other site 318161003385 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 318161003386 dimer interface [polypeptide binding]; other site 318161003387 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318161003388 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 318161003389 ATP binding site [chemical binding]; other site 318161003390 Mg++ binding site [ion binding]; other site 318161003391 motif III; other site 318161003392 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 318161003393 nucleotide binding region [chemical binding]; other site 318161003394 ATP-binding site [chemical binding]; other site 318161003395 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 318161003396 active site 318161003397 DNA polymerase IV; Validated; Region: PRK02406 318161003398 DNA binding site [nucleotide binding] 318161003399 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161003400 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 318161003401 non-specific DNA binding site [nucleotide binding]; other site 318161003402 salt bridge; other site 318161003403 sequence-specific DNA binding site [nucleotide binding]; other site 318161003404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 318161003405 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 318161003406 Predicted permeases [General function prediction only]; Region: COG0679 318161003407 Protein of unknown function (DUF416); Region: DUF416; pfam04222 318161003408 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 318161003409 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 318161003410 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 318161003411 dimerization interface [polypeptide binding]; other site 318161003412 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 318161003413 dimer interface [polypeptide binding]; other site 318161003414 phosphorylation site [posttranslational modification] 318161003415 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161003416 ATP binding site [chemical binding]; other site 318161003417 Mg2+ binding site [ion binding]; other site 318161003418 G-X-G motif; other site 318161003419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003420 active site 318161003421 phosphorylation site [posttranslational modification] 318161003422 intermolecular recognition site; other site 318161003423 dimerization interface [polypeptide binding]; other site 318161003424 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 318161003425 putative binding surface; other site 318161003426 active site 318161003427 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 318161003428 TRAM domain; Region: TRAM; pfam01938 318161003429 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161003430 S-adenosylmethionine binding site [chemical binding]; other site 318161003431 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 318161003432 HD domain; Region: HD_4; pfam13328 318161003433 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318161003434 synthetase active site [active] 318161003435 NTP binding site [chemical binding]; other site 318161003436 metal binding site [ion binding]; metal-binding site 318161003437 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 318161003438 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 318161003439 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 318161003440 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 318161003441 homodimer interface [polypeptide binding]; other site 318161003442 metal binding site [ion binding]; metal-binding site 318161003443 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 318161003444 homodimer interface [polypeptide binding]; other site 318161003445 active site 318161003446 putative chemical substrate binding site [chemical binding]; other site 318161003447 metal binding site [ion binding]; metal-binding site 318161003448 CTP synthetase; Validated; Region: pyrG; PRK05380 318161003449 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 318161003450 Catalytic site [active] 318161003451 active site 318161003452 UTP binding site [chemical binding]; other site 318161003453 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 318161003454 active site 318161003455 putative oxyanion hole; other site 318161003456 catalytic triad [active] 318161003457 enolase; Provisional; Region: eno; PRK00077 318161003458 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 318161003459 dimer interface [polypeptide binding]; other site 318161003460 metal binding site [ion binding]; metal-binding site 318161003461 substrate binding pocket [chemical binding]; other site 318161003462 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 318161003463 Septum formation initiator; Region: DivIC; cl17659 318161003464 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 318161003465 substrate binding site; other site 318161003466 dimer interface; other site 318161003467 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 318161003468 homotrimer interaction site [polypeptide binding]; other site 318161003469 zinc binding site [ion binding]; other site 318161003470 CDP-binding sites; other site 318161003471 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 318161003472 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 318161003473 Permutation of conserved domain; other site 318161003474 active site 318161003475 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 318161003476 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 318161003477 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 318161003478 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161003479 S-adenosylmethionine binding site [chemical binding]; other site 318161003480 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 318161003481 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161003482 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161003483 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 318161003484 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318161003485 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161003486 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318161003487 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 318161003488 DNA binding residues [nucleotide binding] 318161003489 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161003490 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161003491 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 318161003492 MutS domain I; Region: MutS_I; pfam01624 318161003493 MutS domain II; Region: MutS_II; pfam05188 318161003494 MutS domain III; Region: MutS_III; pfam05192 318161003495 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 318161003496 Walker A/P-loop; other site 318161003497 ATP binding site [chemical binding]; other site 318161003498 Q-loop/lid; other site 318161003499 ABC transporter signature motif; other site 318161003500 Walker B; other site 318161003501 D-loop; other site 318161003502 H-loop/switch region; other site 318161003503 recombinase A; Provisional; Region: recA; PRK09354 318161003504 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 318161003505 hexamer interface [polypeptide binding]; other site 318161003506 Walker A motif; other site 318161003507 ATP binding site [chemical binding]; other site 318161003508 Walker B motif; other site 318161003509 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 318161003510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003511 active site 318161003512 phosphorylation site [posttranslational modification] 318161003513 intermolecular recognition site; other site 318161003514 dimerization interface [polypeptide binding]; other site 318161003515 LytTr DNA-binding domain; Region: LytTR; smart00850 318161003516 Histidine kinase; Region: His_kinase; pfam06580 318161003517 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318161003518 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318161003519 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 318161003520 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 318161003521 motif 1; other site 318161003522 active site 318161003523 motif 2; other site 318161003524 motif 3; other site 318161003525 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 318161003526 DHHA1 domain; Region: DHHA1; pfam02272 318161003527 carbon storage regulator; Provisional; Region: PRK01712 318161003528 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318161003529 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318161003530 Predicted membrane protein [Function unknown]; Region: COG1238 318161003531 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318161003532 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318161003533 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318161003534 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318161003535 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318161003536 glutamate--cysteine ligase; Provisional; Region: PRK02107 318161003537 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161003538 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161003539 catalytic residue [active] 318161003540 GAF domain; Region: GAF_2; pfam13185 318161003541 GAF domain; Region: GAF; pfam01590 318161003542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161003543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161003544 metal binding site [ion binding]; metal-binding site 318161003545 active site 318161003546 I-site; other site 318161003547 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 318161003548 ATP-grasp domain; Region: ATP-grasp; pfam02222 318161003549 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 318161003550 OsmC-like protein; Region: OsmC; cl00767 318161003551 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 318161003552 30S subunit binding site; other site 318161003553 hypothetical protein; Provisional; Region: PRK12378 318161003554 Protein of unknown function (DUF2375); Region: DUF2375; pfam09558 318161003555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161003556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161003557 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318161003558 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 318161003559 FMN binding site [chemical binding]; other site 318161003560 active site 318161003561 substrate binding site [chemical binding]; other site 318161003562 catalytic residue [active] 318161003563 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 318161003564 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 318161003565 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 318161003566 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 318161003567 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 318161003568 PhnA protein; Region: PhnA; pfam03831 318161003569 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 318161003570 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 318161003571 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 318161003572 ATP binding site [chemical binding]; other site 318161003573 putative Mg++ binding site [ion binding]; other site 318161003574 HsdM N-terminal domain; Region: HsdM_N; pfam12161 318161003575 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 318161003576 Methyltransferase domain; Region: Methyltransf_26; pfam13659 318161003577 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 318161003578 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 318161003579 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318161003580 AAA domain; Region: AAA_30; pfam13604 318161003581 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 318161003582 AAA domain; Region: AAA_12; pfam13087 318161003583 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 318161003584 PLD-like domain; Region: PLDc_2; pfam13091 318161003585 putative active site [active] 318161003586 catalytic site [active] 318161003587 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 318161003588 SmpB-tmRNA interface; other site 318161003589 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 318161003590 putative coenzyme Q binding site [chemical binding]; other site 318161003591 hypothetical protein; Validated; Region: PRK01777 318161003592 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 318161003593 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 318161003594 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 318161003595 active site 318161003596 SAM binding site [chemical binding]; other site 318161003597 homodimer interface [polypeptide binding]; other site 318161003598 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161003599 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161003600 metal binding site [ion binding]; metal-binding site 318161003601 active site 318161003602 I-site; other site 318161003603 malate synthase A; Region: malate_syn_A; TIGR01344 318161003604 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 318161003605 active site 318161003606 isocitrate lyase; Provisional; Region: PRK15063 318161003607 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 318161003608 tetramer interface [polypeptide binding]; other site 318161003609 active site 318161003610 Mg2+/Mn2+ binding site [ion binding]; other site 318161003611 HDOD domain; Region: HDOD; pfam08668 318161003612 GAF domain; Region: GAF_3; pfam13492 318161003613 SnoaL-like domain; Region: SnoaL_3; pfam13474 318161003614 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 318161003615 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 318161003616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161003617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161003618 Coenzyme A binding pocket [chemical binding]; other site 318161003619 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 318161003620 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318161003621 active site 318161003622 metal binding site [ion binding]; metal-binding site 318161003623 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318161003624 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 318161003625 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 318161003626 FeS/SAM binding site; other site 318161003627 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 318161003628 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 318161003629 binding surface 318161003630 TPR motif; other site 318161003631 cytoskeletal protein RodZ; Provisional; Region: PRK10856 318161003632 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 318161003633 non-specific DNA binding site [nucleotide binding]; other site 318161003634 salt bridge; other site 318161003635 sequence-specific DNA binding site [nucleotide binding]; other site 318161003636 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 318161003637 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 318161003638 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318161003639 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 318161003640 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 318161003641 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 318161003642 dimer interface [polypeptide binding]; other site 318161003643 motif 1; other site 318161003644 active site 318161003645 motif 2; other site 318161003646 motif 3; other site 318161003647 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 318161003648 anticodon binding site; other site 318161003649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 318161003650 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 318161003651 binding surface 318161003652 TPR motif; other site 318161003653 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 318161003654 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 318161003655 Trp docking motif [polypeptide binding]; other site 318161003656 active site 318161003657 GTP-binding protein Der; Reviewed; Region: PRK00093 318161003658 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 318161003659 G1 box; other site 318161003660 GTP/Mg2+ binding site [chemical binding]; other site 318161003661 Switch I region; other site 318161003662 G2 box; other site 318161003663 Switch II region; other site 318161003664 G3 box; other site 318161003665 G4 box; other site 318161003666 G5 box; other site 318161003667 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 318161003668 G1 box; other site 318161003669 GTP/Mg2+ binding site [chemical binding]; other site 318161003670 Switch I region; other site 318161003671 G2 box; other site 318161003672 G3 box; other site 318161003673 Switch II region; other site 318161003674 G4 box; other site 318161003675 G5 box; other site 318161003676 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 318161003677 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 318161003678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161003679 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161003680 ATP binding site [chemical binding]; other site 318161003681 Mg2+ binding site [ion binding]; other site 318161003682 G-X-G motif; other site 318161003683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161003684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003685 active site 318161003686 phosphorylation site [posttranslational modification] 318161003687 intermolecular recognition site; other site 318161003688 dimerization interface [polypeptide binding]; other site 318161003689 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 318161003690 DNA binding site [nucleotide binding] 318161003691 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 318161003692 putative outer membrane lipoprotein; Provisional; Region: PRK10510 318161003693 Glycine zipper; Region: Gly-zipper_Omp; cl17724 318161003694 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161003695 ligand binding site [chemical binding]; other site 318161003696 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 318161003697 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 318161003698 generic binding surface II; other site 318161003699 generic binding surface I; other site 318161003700 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 318161003701 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 318161003702 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 318161003703 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 318161003704 active site 318161003705 GMP synthase; Reviewed; Region: guaA; PRK00074 318161003706 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 318161003707 AMP/PPi binding site [chemical binding]; other site 318161003708 candidate oxyanion hole; other site 318161003709 catalytic triad [active] 318161003710 potential glutamine specificity residues [chemical binding]; other site 318161003711 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 318161003712 ATP Binding subdomain [chemical binding]; other site 318161003713 Ligand Binding sites [chemical binding]; other site 318161003714 Dimerization subdomain; other site 318161003715 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 318161003716 nucleoside/Zn binding site; other site 318161003717 dimer interface [polypeptide binding]; other site 318161003718 catalytic motif [active] 318161003719 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 318161003720 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 318161003721 substrate binding pocket [chemical binding]; other site 318161003722 membrane-bound complex binding site; other site 318161003723 hinge residues; other site 318161003724 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161003725 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161003726 catalytic residue [active] 318161003727 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 318161003728 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 318161003729 dimerization interface [polypeptide binding]; other site 318161003730 ATP binding site [chemical binding]; other site 318161003731 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 318161003732 dimerization interface [polypeptide binding]; other site 318161003733 ATP binding site [chemical binding]; other site 318161003734 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 318161003735 putative active site [active] 318161003736 catalytic triad [active] 318161003737 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 318161003738 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 318161003739 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 318161003740 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 318161003741 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 318161003742 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161003743 Protein export membrane protein; Region: SecD_SecF; cl14618 318161003744 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161003745 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161003746 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161003747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161003748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161003749 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 318161003750 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 318161003751 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 318161003752 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 318161003753 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 318161003754 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161003755 (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 318161003756 dimer interaction site [polypeptide binding]; other site 318161003757 substrate-binding tunnel; other site 318161003758 active site 318161003759 catalytic site [active] 318161003760 substrate binding site [chemical binding]; other site 318161003761 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 318161003762 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 318161003763 binding surface 318161003764 TPR motif; other site 318161003765 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318161003766 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 318161003767 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 318161003768 NAD(P) binding site [chemical binding]; other site 318161003769 homodimer interface [polypeptide binding]; other site 318161003770 substrate binding site [chemical binding]; other site 318161003771 active site 318161003772 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 318161003773 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 318161003774 inhibitor-cofactor binding pocket; inhibition site 318161003775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161003776 catalytic residue [active] 318161003777 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 318161003778 ligand binding site; other site 318161003779 tetramer interface; other site 318161003780 pseudaminic acid synthase; Region: PseI; TIGR03586 318161003781 NeuB family; Region: NeuB; pfam03102 318161003782 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 318161003783 NeuB binding interface [polypeptide binding]; other site 318161003784 putative substrate binding site [chemical binding]; other site 318161003785 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 318161003786 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318161003787 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 318161003788 Methyltransferase domain; Region: Methyltransf_12; pfam08242 318161003789 S-adenosylmethionine binding site [chemical binding]; other site 318161003790 WbqC-like protein family; Region: WbqC; pfam08889 318161003791 LPP20 lipoprotein; Region: LPP20; cl15824 318161003792 FlgN protein; Region: FlgN; pfam05130 318161003793 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 318161003794 SAF-like; Region: SAF_2; pfam13144 318161003795 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 318161003796 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 318161003797 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161003798 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003799 active site 318161003800 phosphorylation site [posttranslational modification] 318161003801 intermolecular recognition site; other site 318161003802 dimerization interface [polypeptide binding]; other site 318161003803 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 318161003804 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 318161003805 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161003806 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 318161003807 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 318161003808 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 318161003809 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161003810 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161003811 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 318161003812 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 318161003813 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 318161003814 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 318161003815 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 318161003816 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161003817 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 318161003818 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 318161003819 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 318161003820 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161003821 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161003822 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 318161003823 Flagellar L-ring protein; Region: FlgH; pfam02107 318161003824 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 318161003825 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 318161003826 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 318161003827 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 318161003828 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 318161003829 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 318161003830 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161003831 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161003832 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 318161003833 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318161003834 flagellin; Provisional; Region: PRK12802 318161003835 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318161003836 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318161003837 flagellin; Provisional; Region: PRK12802 318161003838 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318161003839 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318161003840 FlaG protein; Region: FlaG; pfam03646 318161003841 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 318161003842 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 318161003843 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 318161003844 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 318161003845 flagellar protein FliS; Validated; Region: fliS; PRK05685 318161003846 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 318161003847 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318161003848 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 318161003849 Walker A motif; other site 318161003850 ATP binding site [chemical binding]; other site 318161003851 Walker B motif; other site 318161003852 arginine finger; other site 318161003853 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161003854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161003855 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 318161003856 putative active site [active] 318161003857 heme pocket [chemical binding]; other site 318161003858 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 318161003859 dimer interface [polypeptide binding]; other site 318161003860 phosphorylation site [posttranslational modification] 318161003861 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161003862 ATP binding site [chemical binding]; other site 318161003863 Mg2+ binding site [ion binding]; other site 318161003864 G-X-G motif; other site 318161003865 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318161003866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003867 active site 318161003868 phosphorylation site [posttranslational modification] 318161003869 intermolecular recognition site; other site 318161003870 dimerization interface [polypeptide binding]; other site 318161003871 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 318161003872 Walker A motif; other site 318161003873 ATP binding site [chemical binding]; other site 318161003874 Walker B motif; other site 318161003875 arginine finger; other site 318161003876 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161003877 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 318161003878 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 318161003879 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 318161003880 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 318161003881 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 318161003882 MgtE intracellular N domain; Region: MgtE_N; smart00924 318161003883 FliG C-terminal domain; Region: FliG_C; pfam01706 318161003884 flagellar assembly protein H; Validated; Region: fliH; PRK05687 318161003885 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 318161003886 Flagellar assembly protein FliH; Region: FliH; pfam02108 318161003887 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 318161003888 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 318161003889 Walker A motif/ATP binding site; other site 318161003890 Walker B motif; other site 318161003891 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 318161003892 Flagellar FliJ protein; Region: FliJ; pfam02050 318161003893 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 318161003894 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 318161003895 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 318161003896 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 318161003897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161003898 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161003899 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161003900 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 318161003901 flagellar motor switch protein; Validated; Region: fliN; PRK08983 318161003902 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 318161003903 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 318161003904 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 318161003905 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 318161003906 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 318161003907 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 318161003908 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 318161003909 FHIPEP family; Region: FHIPEP; pfam00771 318161003910 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 318161003911 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318161003912 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318161003913 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 318161003914 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 318161003915 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 318161003916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161003917 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318161003918 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 318161003919 DNA binding residues [nucleotide binding] 318161003920 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318161003921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003922 active site 318161003923 phosphorylation site [posttranslational modification] 318161003924 intermolecular recognition site; other site 318161003925 dimerization interface [polypeptide binding]; other site 318161003926 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 318161003927 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 318161003928 putative binding surface; other site 318161003929 active site 318161003930 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 318161003931 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 318161003932 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161003933 ATP binding site [chemical binding]; other site 318161003934 Mg2+ binding site [ion binding]; other site 318161003935 G-X-G motif; other site 318161003936 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 318161003937 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 318161003938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003939 active site 318161003940 phosphorylation site [posttranslational modification] 318161003941 intermolecular recognition site; other site 318161003942 CheB methylesterase; Region: CheB_methylest; pfam01339 318161003943 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318161003944 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 318161003945 P-loop; other site 318161003946 Magnesium ion binding site [ion binding]; other site 318161003947 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 318161003948 Magnesium ion binding site [ion binding]; other site 318161003949 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 318161003950 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 318161003951 putative CheA interaction surface; other site 318161003952 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 318161003953 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 318161003954 VacJ like lipoprotein; Region: VacJ; cl01073 318161003955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003956 Response regulator receiver domain; Region: Response_reg; pfam00072 318161003957 active site 318161003958 phosphorylation site [posttranslational modification] 318161003959 intermolecular recognition site; other site 318161003960 dimerization interface [polypeptide binding]; other site 318161003961 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 318161003962 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161003963 putative substrate translocation pore; other site 318161003964 POT family; Region: PTR2; cl17359 318161003965 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318161003966 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161003967 ligand binding site [chemical binding]; other site 318161003968 mechanosensitive channel MscS; Provisional; Region: PRK10334 318161003969 Conserved TM helix; Region: TM_helix; pfam05552 318161003970 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318161003971 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 318161003972 dimer interface [polypeptide binding]; other site 318161003973 catalytic triad [active] 318161003974 peroxidatic and resolving cysteines [active] 318161003975 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 318161003976 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 318161003977 tetramer interface [polypeptide binding]; other site 318161003978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161003979 catalytic residue [active] 318161003980 BCCT family transporter; Region: BCCT; pfam02028 318161003981 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 318161003982 active site 318161003983 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 318161003984 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161003985 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 318161003986 dimerization interface [polypeptide binding]; other site 318161003987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161003988 ATP binding site [chemical binding]; other site 318161003989 Mg2+ binding site [ion binding]; other site 318161003990 G-X-G motif; other site 318161003991 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318161003992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161003993 active site 318161003994 phosphorylation site [posttranslational modification] 318161003995 intermolecular recognition site; other site 318161003996 dimerization interface [polypeptide binding]; other site 318161003997 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 318161003998 Walker A motif; other site 318161003999 ATP binding site [chemical binding]; other site 318161004000 Walker B motif; other site 318161004001 arginine finger; other site 318161004002 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161004003 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 318161004004 Methyltransferase domain; Region: Methyltransf_32; pfam13679 318161004005 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 318161004006 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 318161004007 dimer interface [polypeptide binding]; other site 318161004008 active site 318161004009 CoA binding pocket [chemical binding]; other site 318161004010 haloalkane dehalogenase; Provisional; Region: PRK03592 318161004011 peptide synthase; Provisional; Region: PRK09274 318161004012 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161004013 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 318161004014 acyl-activating enzyme (AAE) consensus motif; other site 318161004015 putative AMP binding site [chemical binding]; other site 318161004016 putative active site [active] 318161004017 putative CoA binding site [chemical binding]; other site 318161004018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161004019 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 318161004020 NAD(P) binding site [chemical binding]; other site 318161004021 active site 318161004022 Methyltransferase domain; Region: Methyltransf_31; pfam13847 318161004023 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161004024 S-adenosylmethionine binding site [chemical binding]; other site 318161004025 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161004026 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 318161004027 aspartate racemase; Region: asp_race; TIGR00035 318161004028 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 318161004029 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 318161004030 PYR/PP interface [polypeptide binding]; other site 318161004031 dimer interface [polypeptide binding]; other site 318161004032 TPP binding site [chemical binding]; other site 318161004033 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 318161004034 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 318161004035 TPP-binding site [chemical binding]; other site 318161004036 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 318161004037 active site 318161004038 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161004039 Coenzyme A binding pocket [chemical binding]; other site 318161004040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318161004041 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161004042 Peptidase M35 domain of peptidyl-Lys metalloendopeptidases; Region: M35_peptidyl-Lys; cd11306 318161004043 active site 318161004044 Zn binding site [ion binding]; other site 318161004045 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 318161004046 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 318161004047 dimer interface [polypeptide binding]; other site 318161004048 active site 318161004049 CoA binding pocket [chemical binding]; other site 318161004050 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318161004051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318161004052 DNA-binding site [nucleotide binding]; DNA binding site 318161004053 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 318161004054 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 318161004055 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 318161004056 active site 318161004057 motif I; other site 318161004058 motif II; other site 318161004059 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 318161004060 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 318161004061 dimer interface [polypeptide binding]; other site 318161004062 active site 318161004063 heme binding site [chemical binding]; other site 318161004064 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 318161004065 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318161004066 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 318161004067 putative C-terminal domain interface [polypeptide binding]; other site 318161004068 putative GSH binding site (G-site) [chemical binding]; other site 318161004069 putative dimer interface [polypeptide binding]; other site 318161004070 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 318161004071 putative N-terminal domain interface [polypeptide binding]; other site 318161004072 putative dimer interface [polypeptide binding]; other site 318161004073 putative substrate binding pocket (H-site) [chemical binding]; other site 318161004074 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 318161004075 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 318161004076 potential catalytic triad [active] 318161004077 conserved cys residue [active] 318161004078 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 318161004079 Prostaglandin dehydrogenases; Region: PGDH; cd05288 318161004080 NAD(P) binding site [chemical binding]; other site 318161004081 substrate binding site [chemical binding]; other site 318161004082 dimer interface [polypeptide binding]; other site 318161004083 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161004084 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161004085 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 318161004086 PAS domain; Region: PAS_9; pfam13426 318161004087 putative active site [active] 318161004088 heme pocket [chemical binding]; other site 318161004089 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 318161004090 PAS domain; Region: PAS_9; pfam13426 318161004091 putative active site [active] 318161004092 heme pocket [chemical binding]; other site 318161004093 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161004094 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161004095 metal binding site [ion binding]; metal-binding site 318161004096 active site 318161004097 I-site; other site 318161004098 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 318161004099 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 318161004100 active site 318161004101 TolQ protein; Region: tolQ; TIGR02796 318161004102 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 318161004103 TolR protein; Region: tolR; TIGR02801 318161004104 TolA protein; Region: tolA_full; TIGR02794 318161004105 TolA C-terminal; Region: TolA; pfam06519 318161004106 TolA protein; Region: tolA_full; TIGR02794 318161004107 translocation protein TolB; Provisional; Region: tolB; PRK04792 318161004108 TolB amino-terminal domain; Region: TolB_N; pfam04052 318161004109 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161004110 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161004111 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161004112 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161004113 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 318161004114 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161004115 ligand binding site [chemical binding]; other site 318161004116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 318161004117 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 318161004118 binding surface 318161004119 TPR motif; other site 318161004120 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 318161004121 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 318161004122 dimer interface [polypeptide binding]; other site 318161004123 catalytic site [active] 318161004124 putative active site [active] 318161004125 putative substrate binding site [chemical binding]; other site 318161004126 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 318161004127 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161004128 ligand binding site [chemical binding]; other site 318161004129 Protein of unknown function, DUF479; Region: DUF479; cl01203 318161004130 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 318161004131 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 318161004132 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 318161004133 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 318161004134 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 318161004135 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 318161004136 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 318161004137 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318161004138 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 318161004139 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 318161004140 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 318161004141 Protein export membrane protein; Region: SecD_SecF; pfam02355 318161004142 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 318161004143 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 318161004144 active site residue [active] 318161004145 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 318161004146 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 318161004147 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 318161004148 YaeQ protein; Region: YaeQ; pfam07152 318161004149 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318161004150 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 318161004151 active site 318161004152 catalytic residues [active] 318161004153 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 318161004154 PA/subtilisin-like domain interface [polypeptide binding]; other site 318161004155 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318161004156 catalytic residues [active] 318161004157 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318161004158 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 318161004159 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 318161004160 active site residue [active] 318161004161 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 318161004162 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161004163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161004164 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161004165 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 318161004166 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 318161004167 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 318161004168 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 318161004169 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 318161004170 ATP binding site [chemical binding]; other site 318161004171 Mg++ binding site [ion binding]; other site 318161004172 motif III; other site 318161004173 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 318161004174 nucleotide binding region [chemical binding]; other site 318161004175 ATP-binding site [chemical binding]; other site 318161004176 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 318161004177 active site 318161004178 nucleophile elbow; other site 318161004179 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 318161004180 ATP cone domain; Region: ATP-cone; pfam03477 318161004181 Class III ribonucleotide reductase; Region: RNR_III; cd01675 318161004182 effector binding site; other site 318161004183 active site 318161004184 Zn binding site [ion binding]; other site 318161004185 glycine loop; other site 318161004186 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 318161004187 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 318161004188 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 318161004189 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318161004190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161004191 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 318161004192 non-specific DNA binding site [nucleotide binding]; other site 318161004193 salt bridge; other site 318161004194 sequence-specific DNA binding site [nucleotide binding]; other site 318161004195 recombination protein RecR; Reviewed; Region: recR; PRK00076 318161004196 RecR protein; Region: RecR; pfam02132 318161004197 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 318161004198 putative active site [active] 318161004199 putative metal-binding site [ion binding]; other site 318161004200 tetramer interface [polypeptide binding]; other site 318161004201 heat shock protein 90; Provisional; Region: PRK05218 318161004202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161004203 ATP binding site [chemical binding]; other site 318161004204 Mg2+ binding site [ion binding]; other site 318161004205 G-X-G motif; other site 318161004206 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 318161004207 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 318161004208 adenylate kinase; Reviewed; Region: adk; PRK00279 318161004209 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 318161004210 AMP-binding site [chemical binding]; other site 318161004211 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 318161004212 inosine/guanosine kinase; Provisional; Region: PRK15074 318161004213 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 318161004214 substrate binding site [chemical binding]; other site 318161004215 ATP binding site [chemical binding]; other site 318161004216 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 318161004217 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 318161004218 homodimer interface [polypeptide binding]; other site 318161004219 NAD binding pocket [chemical binding]; other site 318161004220 ATP binding pocket [chemical binding]; other site 318161004221 Mg binding site [ion binding]; other site 318161004222 active-site loop [active] 318161004223 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 318161004224 NADH dehydrogenase subunit 6; Provisional; Region: ND6; cl17265 318161004225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161004226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161004227 metal binding site [ion binding]; metal-binding site 318161004228 active site 318161004229 I-site; other site 318161004230 response regulator; Provisional; Region: PRK09483 318161004231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161004232 active site 318161004233 phosphorylation site [posttranslational modification] 318161004234 intermolecular recognition site; other site 318161004235 dimerization interface [polypeptide binding]; other site 318161004236 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 318161004237 DNA binding residues [nucleotide binding] 318161004238 dimerization interface [polypeptide binding]; other site 318161004239 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 318161004240 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 318161004241 GIY-YIG motif/motif A; other site 318161004242 active site 318161004243 catalytic site [active] 318161004244 putative DNA binding site [nucleotide binding]; other site 318161004245 metal binding site [ion binding]; metal-binding site 318161004246 UvrB/uvrC motif; Region: UVR; pfam02151 318161004247 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 318161004248 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 318161004249 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161004250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161004251 Coenzyme A binding pocket [chemical binding]; other site 318161004252 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318161004253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161004254 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 318161004255 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318161004256 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318161004257 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 318161004258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161004259 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 318161004260 active site 318161004261 metal binding site [ion binding]; metal-binding site 318161004262 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318161004263 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 318161004264 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161004265 hypothetical protein; Provisional; Region: PRK11020 318161004266 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 318161004267 dimerization interface [polypeptide binding]; other site 318161004268 active site 318161004269 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 318161004270 ParA-like protein; Provisional; Region: PHA02518 318161004271 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 318161004272 P-loop; other site 318161004273 Magnesium ion binding site [ion binding]; other site 318161004274 PilZ domain; Region: PilZ; pfam07238 318161004275 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 318161004276 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 318161004277 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 318161004278 active site 318161004279 dimerization interface [polypeptide binding]; other site 318161004280 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 318161004281 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 318161004282 serine O-acetyltransferase; Region: cysE; TIGR01172 318161004283 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 318161004284 trimer interface [polypeptide binding]; other site 318161004285 active site 318161004286 substrate binding site [chemical binding]; other site 318161004287 CoA binding site [chemical binding]; other site 318161004288 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 318161004289 Rrf2 family protein; Region: rrf2_super; TIGR00738 318161004290 cysteine desulfurase; Provisional; Region: PRK14012 318161004291 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 318161004292 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161004293 catalytic residue [active] 318161004294 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 318161004295 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 318161004296 trimerization site [polypeptide binding]; other site 318161004297 active site 318161004298 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 318161004299 co-chaperone HscB; Provisional; Region: hscB; PRK05014 318161004300 DnaJ domain; Region: DnaJ; pfam00226 318161004301 HSP70 interaction site [polypeptide binding]; other site 318161004302 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 318161004303 chaperone protein HscA; Provisional; Region: hscA; PRK05183 318161004304 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 318161004305 nucleotide binding site [chemical binding]; other site 318161004306 putative NEF/HSP70 interaction site [polypeptide binding]; other site 318161004307 SBD interface [polypeptide binding]; other site 318161004308 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 318161004309 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 318161004310 catalytic loop [active] 318161004311 iron binding site [ion binding]; other site 318161004312 Cytochrome c553 [Energy production and conversion]; Region: COG2863 318161004313 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 318161004314 putative catalytic site [active] 318161004315 putative phosphate binding site [ion binding]; other site 318161004316 active site 318161004317 metal binding site A [ion binding]; metal-binding site 318161004318 DNA binding site [nucleotide binding] 318161004319 putative AP binding site [nucleotide binding]; other site 318161004320 putative metal binding site B [ion binding]; other site 318161004321 YciI-like protein; Reviewed; Region: PRK11370 318161004322 intracellular septation protein A; Reviewed; Region: PRK00259 318161004323 aspartate racemase; Region: asp_race; TIGR00035 318161004324 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 318161004325 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 318161004326 catalytic motif [active] 318161004327 Zn binding site [ion binding]; other site 318161004328 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 318161004329 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161004330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161004331 Coenzyme A binding pocket [chemical binding]; other site 318161004332 Homeodomain-like domain; Region: HTH_32; pfam13565 318161004333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 318161004334 Integrase core domain; Region: rve; pfam00665 318161004335 Integrase core domain; Region: rve_3; pfam13683 318161004336 Transposase; Region: HTH_Tnp_1; cl17663 318161004337 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 318161004338 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161004339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 318161004340 MOSC domain; Region: MOSC; pfam03473 318161004341 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 318161004342 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 318161004343 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 318161004344 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 318161004345 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 318161004346 dimer interface [polypeptide binding]; other site 318161004347 active site 318161004348 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 318161004349 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 318161004350 ligand binding site [chemical binding]; other site 318161004351 NAD binding site [chemical binding]; other site 318161004352 catalytic site [active] 318161004353 homodimer interface [polypeptide binding]; other site 318161004354 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 318161004355 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 318161004356 FimV N-terminal domain; Region: FimV_core; TIGR03505 318161004357 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 318161004358 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 318161004359 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 318161004360 dimerization interface 3.5A [polypeptide binding]; other site 318161004361 active site 318161004362 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 318161004363 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 318161004364 cell division protein DedD; Provisional; Region: PRK11633 318161004365 Sporulation related domain; Region: SPOR; pfam05036 318161004366 Colicin V production protein; Region: Colicin_V; cl00567 318161004367 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 318161004368 amidophosphoribosyltransferase; Provisional; Region: PRK09246 318161004369 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 318161004370 active site 318161004371 tetramer interface [polypeptide binding]; other site 318161004372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161004373 active site 318161004374 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318161004375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161004376 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318161004377 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 318161004378 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 318161004379 DNA binding site [nucleotide binding] 318161004380 active site 318161004381 short chain dehydrogenase; Provisional; Region: PRK07478 318161004382 classical (c) SDRs; Region: SDR_c; cd05233 318161004383 NAD(P) binding site [chemical binding]; other site 318161004384 active site 318161004385 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 318161004386 NapD protein; Region: NapD; pfam03927 318161004387 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 318161004388 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 318161004389 [4Fe-4S] binding site [ion binding]; other site 318161004390 molybdopterin cofactor binding site; other site 318161004391 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 318161004392 molybdopterin cofactor binding site; other site 318161004393 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 318161004394 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 318161004395 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 318161004396 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 318161004397 IHF dimer interface [polypeptide binding]; other site 318161004398 IHF - DNA interface [nucleotide binding]; other site 318161004399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 318161004400 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318161004401 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318161004402 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318161004403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 318161004404 Peptidase M15; Region: Peptidase_M15_3; cl01194 318161004405 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 318161004406 5S rRNA interface [nucleotide binding]; other site 318161004407 CTC domain interface [polypeptide binding]; other site 318161004408 L16 interface [polypeptide binding]; other site 318161004409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 318161004410 Family of unknown function (DUF490); Region: DUF490; pfam04357 318161004411 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 318161004412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318161004413 Surface antigen; Region: Bac_surface_Ag; pfam01103 318161004414 FOG: CBS domain [General function prediction only]; Region: COG0517 318161004415 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_16; cd04629 318161004416 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 318161004417 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 318161004418 ATP binding site [chemical binding]; other site 318161004419 putative Mg++ binding site [ion binding]; other site 318161004420 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 318161004421 nucleotide binding region [chemical binding]; other site 318161004422 ATP-binding site [chemical binding]; other site 318161004423 Helicase associated domain (HA2); Region: HA2; pfam04408 318161004424 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 318161004425 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 318161004426 Flagellin N-methylase; Region: FliB; pfam03692 318161004427 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161004428 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161004429 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161004430 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161004431 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161004432 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161004433 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161004434 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161004435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 318161004436 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 318161004437 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 318161004438 SecY interacting protein Syd; Provisional; Region: PRK04968 318161004439 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 318161004440 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 318161004441 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 318161004442 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161004443 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 318161004444 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 318161004445 Na binding site [ion binding]; other site 318161004446 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 318161004447 RNA polymerase sigma factor; Provisional; Region: PRK12517 318161004448 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161004449 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 318161004450 DNA binding residues [nucleotide binding] 318161004451 Oxygen tolerance; Region: BatD; pfam13584 318161004452 von Willebrand factor type A domain; Region: VWA_2; pfam13519 318161004453 metal ion-dependent adhesion site (MIDAS); other site 318161004454 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318161004455 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 318161004456 TPR motif; other site 318161004457 binding surface 318161004458 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 318161004459 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 318161004460 metal ion-dependent adhesion site (MIDAS); other site 318161004461 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 318161004462 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 318161004463 Protein of unknown function DUF58; Region: DUF58; pfam01882 318161004464 MoxR-like ATPases [General function prediction only]; Region: COG0714 318161004465 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 318161004466 Walker A motif; other site 318161004467 ATP binding site [chemical binding]; other site 318161004468 Walker B motif; other site 318161004469 arginine finger; other site 318161004470 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 318161004471 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 318161004472 dimer interface [polypeptide binding]; other site 318161004473 active site 318161004474 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 318161004475 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 318161004476 substrate binding site [chemical binding]; other site 318161004477 oxyanion hole (OAH) forming residues; other site 318161004478 trimer interface [polypeptide binding]; other site 318161004479 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 318161004480 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318161004481 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 318161004482 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318161004483 PAS fold; Region: PAS_3; pfam08447 318161004484 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 318161004485 PAS domain; Region: PAS_9; pfam13426 318161004486 putative active site [active] 318161004487 heme pocket [chemical binding]; other site 318161004488 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161004489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161004490 metal binding site [ion binding]; metal-binding site 318161004491 active site 318161004492 I-site; other site 318161004493 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 318161004494 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 318161004495 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318161004496 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318161004497 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318161004498 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 318161004499 catalytic core [active] 318161004500 hypothetical protein; Provisional; Region: PRK04946 318161004501 Smr domain; Region: Smr; pfam01713 318161004502 HemK family putative methylases; Region: hemK_fam; TIGR00536 318161004503 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161004504 S-adenosylmethionine binding site [chemical binding]; other site 318161004505 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 318161004506 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 318161004507 Tetramer interface [polypeptide binding]; other site 318161004508 active site 318161004509 FMN-binding site [chemical binding]; other site 318161004510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161004511 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 318161004512 putative substrate translocation pore; other site 318161004513 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 318161004514 YfcL protein; Region: YfcL; pfam08891 318161004515 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 318161004516 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 318161004517 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 318161004518 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 318161004519 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318161004520 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 318161004521 probable active site [active] 318161004522 flavodoxin; Provisional; Region: PRK08105 318161004523 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 318161004524 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 318161004525 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 318161004526 active site turn [active] 318161004527 phosphorylation site [posttranslational modification] 318161004528 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 318161004529 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 318161004530 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 318161004531 putative active site [active] 318161004532 putative substrate binding site [chemical binding]; other site 318161004533 putative cosubstrate binding site; other site 318161004534 catalytic site [active] 318161004535 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 318161004536 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 318161004537 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 318161004538 trimer interface [polypeptide binding]; other site 318161004539 active site 318161004540 substrate binding site [chemical binding]; other site 318161004541 CoA binding site [chemical binding]; other site 318161004542 PII uridylyl-transferase; Provisional; Region: PRK05007 318161004543 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318161004544 metal binding triad; other site 318161004545 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318161004546 HD domain; Region: HD; pfam01966 318161004547 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 318161004548 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 318161004549 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 318161004550 active site 318161004551 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 318161004552 rRNA interaction site [nucleotide binding]; other site 318161004553 S8 interaction site; other site 318161004554 putative laminin-1 binding site; other site 318161004555 elongation factor Ts; Provisional; Region: tsf; PRK09377 318161004556 UBA/TS-N domain; Region: UBA; pfam00627 318161004557 Elongation factor TS; Region: EF_TS; pfam00889 318161004558 Elongation factor TS; Region: EF_TS; pfam00889 318161004559 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 318161004560 putative nucleotide binding site [chemical binding]; other site 318161004561 uridine monophosphate binding site [chemical binding]; other site 318161004562 homohexameric interface [polypeptide binding]; other site 318161004563 ribosome recycling factor; Reviewed; Region: frr; PRK00083 318161004564 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 318161004565 hinge region; other site 318161004566 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 318161004567 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 318161004568 catalytic residue [active] 318161004569 putative FPP diphosphate binding site; other site 318161004570 putative FPP binding hydrophobic cleft; other site 318161004571 dimer interface [polypeptide binding]; other site 318161004572 putative IPP diphosphate binding site; other site 318161004573 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 318161004574 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 318161004575 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 318161004576 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 318161004577 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 318161004578 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 318161004579 zinc metallopeptidase RseP; Provisional; Region: PRK10779 318161004580 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 318161004581 active site 318161004582 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 318161004583 protein binding site [polypeptide binding]; other site 318161004584 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 318161004585 protein binding site [polypeptide binding]; other site 318161004586 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 318161004587 putative substrate binding region [chemical binding]; other site 318161004588 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 318161004589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318161004590 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318161004591 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318161004592 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318161004593 Surface antigen; Region: Bac_surface_Ag; pfam01103 318161004594 periplasmic chaperone; Provisional; Region: PRK10780 318161004595 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 318161004596 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 318161004597 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 318161004598 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 318161004599 trimer interface [polypeptide binding]; other site 318161004600 active site 318161004601 UDP-GlcNAc binding site [chemical binding]; other site 318161004602 lipid binding site [chemical binding]; lipid-binding site 318161004603 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 318161004604 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 318161004605 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 318161004606 active site 318161004607 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 318161004608 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 318161004609 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 318161004610 RNA/DNA hybrid binding site [nucleotide binding]; other site 318161004611 active site 318161004612 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 318161004613 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 318161004614 putative active site [active] 318161004615 putative PHP Thumb interface [polypeptide binding]; other site 318161004616 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 318161004617 generic binding surface II; other site 318161004618 generic binding surface I; other site 318161004619 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 318161004620 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 318161004621 Ligand Binding Site [chemical binding]; other site 318161004622 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 318161004623 HTH-like domain; Region: HTH_21; pfam13276 318161004624 Integrase core domain; Region: rve; pfam00665 318161004625 Integrase core domain; Region: rve_3; pfam13683 318161004626 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161004627 AIPR protein; Region: AIPR; pfam10592 318161004628 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161004629 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161004630 DNA-binding interface [nucleotide binding]; DNA binding site 318161004631 Integrase core domain; Region: rve; pfam00665 318161004632 AIPR protein; Region: AIPR; pfam10592 318161004633 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161004634 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 318161004635 substrate binding pocket [chemical binding]; other site 318161004636 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 318161004637 membrane-bound complex binding site; other site 318161004638 hinge residues; other site 318161004639 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 318161004640 catalytic residues [active] 318161004641 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161004642 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161004643 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161004644 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161004645 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161004646 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318161004647 EamA-like transporter family; Region: EamA; pfam00892 318161004648 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 318161004649 EamA-like transporter family; Region: EamA; pfam00892 318161004650 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318161004651 MarR family; Region: MarR_2; pfam12802 318161004652 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161004653 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161004654 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 318161004655 ferric uptake regulator; Provisional; Region: fur; PRK09462 318161004656 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 318161004657 metal binding site 2 [ion binding]; metal-binding site 318161004658 putative DNA binding helix; other site 318161004659 metal binding site 1 [ion binding]; metal-binding site 318161004660 dimer interface [polypeptide binding]; other site 318161004661 structural Zn2+ binding site [ion binding]; other site 318161004662 NAD-dependent deacetylase; Provisional; Region: PRK00481 318161004663 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 318161004664 NAD+ binding site [chemical binding]; other site 318161004665 substrate binding site [chemical binding]; other site 318161004666 Zn binding site [ion binding]; other site 318161004667 AAA domain; Region: AAA_33; pfam13671 318161004668 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 318161004669 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 318161004670 active site 318161004671 metal binding site [ion binding]; metal-binding site 318161004672 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318161004673 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318161004674 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318161004675 active site 318161004676 Zn binding site [ion binding]; other site 318161004677 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 318161004678 HAMP domain; Region: HAMP; pfam00672 318161004679 dimerization interface [polypeptide binding]; other site 318161004680 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161004681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161004682 dimer interface [polypeptide binding]; other site 318161004683 putative CheW interface [polypeptide binding]; other site 318161004684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161004685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161004686 dimer interface [polypeptide binding]; other site 318161004687 putative CheW interface [polypeptide binding]; other site 318161004688 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 318161004689 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 318161004690 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 318161004691 dimer interface [polypeptide binding]; other site 318161004692 motif 1; other site 318161004693 active site 318161004694 motif 2; other site 318161004695 motif 3; other site 318161004696 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 318161004697 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 318161004698 putative tRNA-binding site [nucleotide binding]; other site 318161004699 B3/4 domain; Region: B3_4; pfam03483 318161004700 tRNA synthetase B5 domain; Region: B5; smart00874 318161004701 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 318161004702 dimer interface [polypeptide binding]; other site 318161004703 motif 1; other site 318161004704 motif 3; other site 318161004705 motif 2; other site 318161004706 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 318161004707 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 318161004708 IHF dimer interface [polypeptide binding]; other site 318161004709 IHF - DNA interface [nucleotide binding]; other site 318161004710 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 318161004711 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 318161004712 putative acyl-acceptor binding pocket; other site 318161004713 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318161004714 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 318161004715 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 318161004716 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 318161004717 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 318161004718 metal binding site [ion binding]; metal-binding site 318161004719 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 318161004720 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 318161004721 substrate binding site [chemical binding]; other site 318161004722 glutamase interaction surface [polypeptide binding]; other site 318161004723 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 318161004724 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 318161004725 catalytic residues [active] 318161004726 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 318161004727 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 318161004728 putative active site [active] 318161004729 oxyanion strand; other site 318161004730 catalytic triad [active] 318161004731 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 318161004732 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 318161004733 active site 318161004734 motif I; other site 318161004735 motif II; other site 318161004736 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 318161004737 putative active site pocket [active] 318161004738 4-fold oligomerization interface [polypeptide binding]; other site 318161004739 metal binding residues [ion binding]; metal-binding site 318161004740 3-fold/trimer interface [polypeptide binding]; other site 318161004741 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 318161004742 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 318161004743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161004744 homodimer interface [polypeptide binding]; other site 318161004745 catalytic residue [active] 318161004746 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 318161004747 histidinol dehydrogenase; Region: hisD; TIGR00069 318161004748 NAD binding site [chemical binding]; other site 318161004749 dimerization interface [polypeptide binding]; other site 318161004750 product binding site; other site 318161004751 substrate binding site [chemical binding]; other site 318161004752 zinc binding site [ion binding]; other site 318161004753 catalytic residues [active] 318161004754 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 318161004755 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 318161004756 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 318161004757 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 318161004758 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 318161004759 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 318161004760 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 318161004761 Glycoprotease family; Region: Peptidase_M22; pfam00814 318161004762 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 318161004763 Predicted methyltransferase [General function prediction only]; Region: COG4798 318161004764 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161004765 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318161004766 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318161004767 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 318161004768 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 318161004769 acyl-activating enzyme (AAE) consensus motif; other site 318161004770 putative AMP binding site [chemical binding]; other site 318161004771 putative active site [active] 318161004772 putative CoA binding site [chemical binding]; other site 318161004773 ribonuclease D; Provisional; Region: PRK10829 318161004774 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 318161004775 catalytic site [active] 318161004776 putative active site [active] 318161004777 putative substrate binding site [chemical binding]; other site 318161004778 HRDC domain; Region: HRDC; pfam00570 318161004779 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 318161004780 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 318161004781 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 318161004782 Switch I; other site 318161004783 Switch II; other site 318161004784 septum formation inhibitor; Reviewed; Region: minC; PRK04804 318161004785 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 318161004786 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 318161004787 YcgL domain; Region: YcgL; pfam05166 318161004788 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318161004789 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161004790 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161004791 hypothetical protein; Provisional; Region: PRK05170 318161004792 disulfide bond formation protein B; Provisional; Region: PRK01749 318161004793 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 318161004794 fatty acid metabolism regulator; Provisional; Region: PRK04984 318161004795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318161004796 DNA-binding site [nucleotide binding]; DNA binding site 318161004797 FadR C-terminal domain; Region: FadR_C; pfam07840 318161004798 SpoVR family protein; Provisional; Region: PRK11767 318161004799 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 318161004800 hypothetical protein; Provisional; Region: PRK05325 318161004801 PrkA family serine protein kinase; Provisional; Region: PRK15455 318161004802 AAA ATPase domain; Region: AAA_16; pfam13191 318161004803 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 318161004804 superoxide dismutase; Provisional; Region: PRK10543 318161004805 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 318161004806 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 318161004807 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 318161004808 putative GSH binding site [chemical binding]; other site 318161004809 catalytic residues [active] 318161004810 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 318161004811 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 318161004812 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 318161004813 dinuclear metal binding motif [ion binding]; other site 318161004814 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 318161004815 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 318161004816 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 318161004817 Walker A motif; other site 318161004818 ATP binding site [chemical binding]; other site 318161004819 Walker B motif; other site 318161004820 arginine finger; other site 318161004821 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 318161004822 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 318161004823 ArsC family; Region: ArsC; pfam03960 318161004824 catalytic residues [active] 318161004825 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 318161004826 Peptidase family M48; Region: Peptidase_M48; cl12018 318161004827 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 318161004828 binding surface 318161004829 TPR motif; other site 318161004830 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 318161004831 CPxP motif; other site 318161004832 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318161004833 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 318161004834 fumarate hydratase; Reviewed; Region: fumC; PRK00485 318161004835 Class II fumarases; Region: Fumarase_classII; cd01362 318161004836 active site 318161004837 tetramer interface [polypeptide binding]; other site 318161004838 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 318161004839 Leucine rich repeat; Region: LRR_8; pfam13855 318161004840 Leucine rich repeat; Region: LRR_8; pfam13855 318161004841 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318161004842 active site 318161004843 ATP binding site [chemical binding]; other site 318161004844 substrate binding site [chemical binding]; other site 318161004845 activation loop (A-loop); other site 318161004846 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 318161004847 active site 318161004848 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 318161004849 ATP binding site [chemical binding]; other site 318161004850 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 318161004851 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 318161004852 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 318161004853 Protein of unknown function, DUF482; Region: DUF482; pfam04339 318161004854 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 318161004855 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 318161004856 inhibitor-cofactor binding pocket; inhibition site 318161004857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161004858 catalytic residue [active] 318161004859 biotin synthase; Provisional; Region: PRK15108 318161004860 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 318161004861 FeS/SAM binding site; other site 318161004862 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 318161004863 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 318161004864 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 318161004865 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161004866 catalytic residue [active] 318161004867 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 318161004868 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161004869 S-adenosylmethionine binding site [chemical binding]; other site 318161004870 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 318161004871 AAA domain; Region: AAA_26; pfam13500 318161004872 CHASE4 domain; Region: CHASE4; pfam05228 318161004873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161004874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161004875 metal binding site [ion binding]; metal-binding site 318161004876 active site 318161004877 I-site; other site 318161004878 Transcriptional regulators [Transcription]; Region: GntR; COG1802 318161004879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318161004880 DNA-binding site [nucleotide binding]; DNA binding site 318161004881 FCD domain; Region: FCD; pfam07729 318161004882 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 318161004883 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 318161004884 tetramer interface [polypeptide binding]; other site 318161004885 active site 318161004886 Mg2+/Mn2+ binding site [ion binding]; other site 318161004887 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 318161004888 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 318161004889 dimer interface [polypeptide binding]; other site 318161004890 active site 318161004891 citrylCoA binding site [chemical binding]; other site 318161004892 oxalacetate/citrate binding site [chemical binding]; other site 318161004893 coenzyme A binding site [chemical binding]; other site 318161004894 catalytic triad [active] 318161004895 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 318161004896 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 318161004897 substrate binding site [chemical binding]; other site 318161004898 ligand binding site [chemical binding]; other site 318161004899 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 318161004900 substrate binding site [chemical binding]; other site 318161004901 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 318161004902 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318161004903 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 318161004904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161004905 homodimer interface [polypeptide binding]; other site 318161004906 catalytic residue [active] 318161004907 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 318161004908 UbiA prenyltransferase family; Region: UbiA; pfam01040 318161004909 acyl-CoA thioesterase II; Provisional; Region: PRK10526 318161004910 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 318161004911 active site 318161004912 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 318161004913 catalytic triad [active] 318161004914 dimer interface [polypeptide binding]; other site 318161004915 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 318161004916 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161004917 putative substrate translocation pore; other site 318161004918 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 318161004919 transcription-repair coupling factor; Provisional; Region: PRK10689 318161004920 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 318161004921 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 318161004922 ATP binding site [chemical binding]; other site 318161004923 putative Mg++ binding site [ion binding]; other site 318161004924 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 318161004925 nucleotide binding region [chemical binding]; other site 318161004926 ATP-binding site [chemical binding]; other site 318161004927 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 318161004928 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 318161004929 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318161004930 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318161004931 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318161004932 Walker A/P-loop; other site 318161004933 ATP binding site [chemical binding]; other site 318161004934 Q-loop/lid; other site 318161004935 ABC transporter signature motif; other site 318161004936 Walker B; other site 318161004937 D-loop; other site 318161004938 H-loop/switch region; other site 318161004939 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 318161004940 FtsX-like permease family; Region: FtsX; pfam02687 318161004941 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 318161004942 active site 318161004943 substrate binding pocket [chemical binding]; other site 318161004944 dimer interface [polypeptide binding]; other site 318161004945 Lipoxygenase; Region: Lipoxygenase; pfam00305 318161004946 Mannan-binding protein; Region: MVL; pfam12151 318161004947 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 318161004948 EamA-like transporter family; Region: EamA; pfam00892 318161004949 EamA-like transporter family; Region: EamA; pfam00892 318161004950 CHASE domain; Region: CHASE; pfam03924 318161004951 PAS domain S-box; Region: sensory_box; TIGR00229 318161004952 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 318161004953 putative active site [active] 318161004954 heme pocket [chemical binding]; other site 318161004955 PAS domain; Region: PAS_9; pfam13426 318161004956 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 318161004957 putative active site [active] 318161004958 heme pocket [chemical binding]; other site 318161004959 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 318161004960 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318161004961 putative active site [active] 318161004962 heme pocket [chemical binding]; other site 318161004963 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 318161004964 putative active site [active] 318161004965 heme pocket [chemical binding]; other site 318161004966 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 318161004967 dimer interface [polypeptide binding]; other site 318161004968 phosphorylation site [posttranslational modification] 318161004969 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161004970 ATP binding site [chemical binding]; other site 318161004971 Mg2+ binding site [ion binding]; other site 318161004972 G-X-G motif; other site 318161004973 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161004974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161004975 active site 318161004976 phosphorylation site [posttranslational modification] 318161004977 intermolecular recognition site; other site 318161004978 dimerization interface [polypeptide binding]; other site 318161004979 Response regulator receiver domain; Region: Response_reg; pfam00072 318161004980 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161004981 active site 318161004982 phosphorylation site [posttranslational modification] 318161004983 intermolecular recognition site; other site 318161004984 dimerization interface [polypeptide binding]; other site 318161004985 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 318161004986 putative binding surface; other site 318161004987 active site 318161004988 Response regulator receiver domain; Region: Response_reg; pfam00072 318161004989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161004990 active site 318161004991 phosphorylation site [posttranslational modification] 318161004992 intermolecular recognition site; other site 318161004993 dimerization interface [polypeptide binding]; other site 318161004994 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161004995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161004996 metal binding site [ion binding]; metal-binding site 318161004997 active site 318161004998 I-site; other site 318161004999 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 318161005000 catalytic motif [active] 318161005001 Catalytic residue [active] 318161005002 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 318161005003 inhibitor binding site; inhibition site 318161005004 catalytic motif [active] 318161005005 Catalytic residue [active] 318161005006 Active site flap [active] 318161005007 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 318161005008 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 318161005009 sequence-specific DNA binding site [nucleotide binding]; other site 318161005010 salt bridge; other site 318161005011 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 318161005012 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 318161005013 Metal binding sites [ion binding]; metal-binding site 318161005014 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 318161005015 Metal binding sites [ion binding]; metal-binding site 318161005016 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 318161005017 Metal binding sites [ion binding]; metal-binding site 318161005018 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 318161005019 Metal binding sites [ion binding]; metal-binding site 318161005020 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 318161005021 Metal binding sites [ion binding]; metal-binding site 318161005022 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 318161005023 Metal binding sites [ion binding]; metal-binding site 318161005024 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 318161005025 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 318161005026 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 318161005027 amidase catalytic site [active] 318161005028 Zn binding residues [ion binding]; other site 318161005029 substrate binding site [chemical binding]; other site 318161005030 Bacterial SH3 domain; Region: SH3_3; cl17532 318161005031 cell division protein FtsZ; Validated; Region: PRK09330 318161005032 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 318161005033 nucleotide binding site [chemical binding]; other site 318161005034 SulA interaction site; other site 318161005035 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318161005036 Two component regulator propeller; Region: Reg_prop; pfam07494 318161005037 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318161005038 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161005039 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 318161005040 dimer interface [polypeptide binding]; other site 318161005041 phosphorylation site [posttranslational modification] 318161005042 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161005043 ATP binding site [chemical binding]; other site 318161005044 Mg2+ binding site [ion binding]; other site 318161005045 G-X-G motif; other site 318161005046 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161005047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161005048 active site 318161005049 phosphorylation site [posttranslational modification] 318161005050 intermolecular recognition site; other site 318161005051 dimerization interface [polypeptide binding]; other site 318161005052 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318161005053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161005054 multidrug efflux protein; Reviewed; Region: PRK01766 318161005055 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 318161005056 cation binding site [ion binding]; other site 318161005057 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 318161005058 Lumazine binding domain; Region: Lum_binding; pfam00677 318161005059 Lumazine binding domain; Region: Lum_binding; pfam00677 318161005060 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 318161005061 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 318161005062 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 318161005063 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 318161005064 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 318161005065 active site 318161005066 dimer interface [polypeptide binding]; other site 318161005067 motif 1; other site 318161005068 motif 2; other site 318161005069 motif 3; other site 318161005070 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 318161005071 anticodon binding site; other site 318161005072 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 318161005073 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 318161005074 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 318161005075 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 318161005076 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 318161005077 23S rRNA binding site [nucleotide binding]; other site 318161005078 L21 binding site [polypeptide binding]; other site 318161005079 L13 binding site [polypeptide binding]; other site 318161005080 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318161005081 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 318161005082 active site 318161005083 FMN binding site [chemical binding]; other site 318161005084 substrate binding site [chemical binding]; other site 318161005085 homotetramer interface [polypeptide binding]; other site 318161005086 catalytic residue [active] 318161005087 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161005088 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161005089 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161005090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161005091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318161005092 thioredoxin reductase; Provisional; Region: PRK10262 318161005093 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161005094 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161005095 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 318161005096 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318161005097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161005098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161005099 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 318161005100 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 318161005101 dimer interface [polypeptide binding]; other site 318161005102 active site 318161005103 metal binding site [ion binding]; metal-binding site 318161005104 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 318161005105 mce related protein; Region: MCE; pfam02470 318161005106 mce related protein; Region: MCE; pfam02470 318161005107 mce related protein; Region: MCE; pfam02470 318161005108 mce related protein; Region: MCE; pfam02470 318161005109 mce related protein; Region: MCE; pfam02470 318161005110 mce related protein; Region: MCE; pfam02470 318161005111 Paraquat-inducible protein A; Region: PqiA; pfam04403 318161005112 Paraquat-inducible protein A; Region: PqiA; pfam04403 318161005113 YebG protein; Region: YebG; pfam07130 318161005114 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 318161005115 ProP expression regulator; Provisional; Region: PRK04950 318161005116 ProQ/FINO family; Region: ProQ; smart00945 318161005117 carboxy-terminal protease; Provisional; Region: PRK11186 318161005118 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 318161005119 protein binding site [polypeptide binding]; other site 318161005120 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 318161005121 Catalytic dyad [active] 318161005122 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 318161005123 aminopeptidase N; Provisional; Region: pepN; PRK14015 318161005124 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 318161005125 active site 318161005126 Zn binding site [ion binding]; other site 318161005127 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 318161005128 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 318161005129 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 318161005130 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 318161005131 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 318161005132 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 318161005133 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 318161005134 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 318161005135 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 318161005136 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 318161005137 quinone interaction residues [chemical binding]; other site 318161005138 active site 318161005139 catalytic residues [active] 318161005140 FMN binding site [chemical binding]; other site 318161005141 substrate binding site [chemical binding]; other site 318161005142 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 318161005143 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 318161005144 TrkA-N domain; Region: TrkA_N; pfam02254 318161005145 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 318161005146 catalytic triad [active] 318161005147 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 318161005148 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 318161005149 dihydrodipicolinate synthase; Region: dapA; TIGR00674 318161005150 dimer interface [polypeptide binding]; other site 318161005151 active site 318161005152 catalytic residue [active] 318161005153 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 318161005154 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 318161005155 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161005156 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161005157 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161005158 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161005159 Protein export membrane protein; Region: SecD_SecF; cl14618 318161005160 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 318161005161 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161005162 S-adenosylmethionine binding site [chemical binding]; other site 318161005163 GAF domain; Region: GAF; pfam01590 318161005164 GAF domain; Region: GAF_2; pfam13185 318161005165 PAS domain; Region: PAS_9; pfam13426 318161005166 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161005167 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161005168 metal binding site [ion binding]; metal-binding site 318161005169 active site 318161005170 I-site; other site 318161005171 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 318161005172 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 318161005173 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 318161005174 hexamer interface [polypeptide binding]; other site 318161005175 ligand binding site [chemical binding]; other site 318161005176 putative active site [active] 318161005177 NAD(P) binding site [chemical binding]; other site 318161005178 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 318161005179 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 318161005180 putative DNA binding site [nucleotide binding]; other site 318161005181 putative Zn2+ binding site [ion binding]; other site 318161005182 AsnC family; Region: AsnC_trans_reg; pfam01037 318161005183 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 318161005184 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 318161005185 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 318161005186 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 318161005187 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 318161005188 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 318161005189 recombination factor protein RarA; Reviewed; Region: PRK13342 318161005190 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 318161005191 Walker A motif; other site 318161005192 ATP binding site [chemical binding]; other site 318161005193 Walker B motif; other site 318161005194 arginine finger; other site 318161005195 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 318161005196 camphor resistance protein CrcB; Provisional; Region: PRK14197 318161005197 seryl-tRNA synthetase; Provisional; Region: PRK05431 318161005198 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 318161005199 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 318161005200 dimer interface [polypeptide binding]; other site 318161005201 active site 318161005202 motif 1; other site 318161005203 motif 2; other site 318161005204 motif 3; other site 318161005205 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 318161005206 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 318161005207 RNA binding surface [nucleotide binding]; other site 318161005208 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 318161005209 probable active site [active] 318161005210 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 318161005211 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 318161005212 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 318161005213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161005214 homodimer interface [polypeptide binding]; other site 318161005215 catalytic residue [active] 318161005216 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 318161005217 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 318161005218 hinge; other site 318161005219 active site 318161005220 cytidylate kinase; Provisional; Region: cmk; PRK00023 318161005221 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 318161005222 CMP-binding site; other site 318161005223 The sites determining sugar specificity; other site 318161005224 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 318161005225 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 318161005226 RNA binding site [nucleotide binding]; other site 318161005227 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 318161005228 RNA binding site [nucleotide binding]; other site 318161005229 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 318161005230 RNA binding site [nucleotide binding]; other site 318161005231 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 318161005232 RNA binding site [nucleotide binding]; other site 318161005233 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 318161005234 RNA binding site [nucleotide binding]; other site 318161005235 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 318161005236 RNA binding site [nucleotide binding]; other site 318161005237 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 318161005238 IHF dimer interface [polypeptide binding]; other site 318161005239 IHF - DNA interface [nucleotide binding]; other site 318161005240 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 318161005241 tetratricopeptide repeat protein; Provisional; Region: PRK11788 318161005242 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 318161005243 binding surface 318161005244 TPR motif; other site 318161005245 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 318161005246 active site 318161005247 dimer interface [polypeptide binding]; other site 318161005248 short chain dehydrogenase; Provisional; Region: PRK07576 318161005249 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 318161005250 NAD(P) binding site [chemical binding]; other site 318161005251 substrate binding site [chemical binding]; other site 318161005252 homotetramer interface [polypeptide binding]; other site 318161005253 active site 318161005254 homodimer interface [polypeptide binding]; other site 318161005255 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 318161005256 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161005257 S-adenosylmethionine binding site [chemical binding]; other site 318161005258 Trm112p-like protein; Region: Trm112p; cl01066 318161005259 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 318161005260 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 318161005261 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318161005262 active site 318161005263 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 318161005264 YCII-related domain; Region: YCII; cl00999 318161005265 Predicted transcriptional regulators [Transcription]; Region: COG1733 318161005266 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 318161005267 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 318161005268 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318161005269 active site 318161005270 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 318161005271 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 318161005272 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 318161005273 putative active site [active] 318161005274 putative dimer interface [polypeptide binding]; other site 318161005275 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 318161005276 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 318161005277 active site 318161005278 DNA binding site [nucleotide binding] 318161005279 Haemolysin-III related; Region: HlyIII; cl03831 318161005280 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 318161005281 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 318161005282 ThiC-associated domain; Region: ThiC-associated; pfam13667 318161005283 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 318161005284 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 318161005285 dimer interface [polypeptide binding]; other site 318161005286 substrate binding site [chemical binding]; other site 318161005287 ATP binding site [chemical binding]; other site 318161005288 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 318161005289 thiamine phosphate binding site [chemical binding]; other site 318161005290 active site 318161005291 pyrophosphate binding site [ion binding]; other site 318161005292 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 318161005293 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 318161005294 ATP binding site [chemical binding]; other site 318161005295 substrate interface [chemical binding]; other site 318161005296 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 318161005297 thiS-thiF/thiG interaction site; other site 318161005298 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 318161005299 ThiS interaction site; other site 318161005300 putative active site [active] 318161005301 tetramer interface [polypeptide binding]; other site 318161005302 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 318161005303 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 318161005304 FeS/SAM binding site; other site 318161005305 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 318161005306 SprA-related family; Region: SprA-related; pfam12118 318161005307 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 318161005308 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 318161005309 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 318161005310 domain interface [polypeptide binding]; other site 318161005311 putative active site [active] 318161005312 catalytic site [active] 318161005313 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 318161005314 domain interface [polypeptide binding]; other site 318161005315 putative active site [active] 318161005316 catalytic site [active] 318161005317 Uncharacterized conserved protein [Function unknown]; Region: COG3148 318161005318 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 318161005319 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 318161005320 ATP binding site [chemical binding]; other site 318161005321 putative Mg++ binding site [ion binding]; other site 318161005322 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 318161005323 nucleotide binding region [chemical binding]; other site 318161005324 ATP-binding site [chemical binding]; other site 318161005325 methionine sulfoxide reductase A; Provisional; Region: PRK14054 318161005326 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 318161005327 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318161005328 putative active site [active] 318161005329 Zn binding site [ion binding]; other site 318161005330 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 318161005331 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 318161005332 tetramer interface [polypeptide binding]; other site 318161005333 TPP-binding site [chemical binding]; other site 318161005334 heterodimer interface [polypeptide binding]; other site 318161005335 phosphorylation loop region [posttranslational modification] 318161005336 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 318161005337 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 318161005338 alpha subunit interface [polypeptide binding]; other site 318161005339 TPP binding site [chemical binding]; other site 318161005340 heterodimer interface [polypeptide binding]; other site 318161005341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318161005342 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 318161005343 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 318161005344 E3 interaction surface; other site 318161005345 lipoyl attachment site [posttranslational modification]; other site 318161005346 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 318161005347 E3 interaction surface; other site 318161005348 lipoyl attachment site [posttranslational modification]; other site 318161005349 e3 binding domain; Region: E3_binding; pfam02817 318161005350 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318161005351 quinolinate synthetase; Provisional; Region: PRK09375 318161005352 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 318161005353 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318161005354 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318161005355 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 318161005356 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 318161005357 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318161005358 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318161005359 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 318161005360 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161005361 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161005362 active site 318161005363 phosphorylation site [posttranslational modification] 318161005364 intermolecular recognition site; other site 318161005365 dimerization interface [polypeptide binding]; other site 318161005366 excinuclease ABC subunit B; Provisional; Region: PRK05298 318161005367 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 318161005368 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 318161005369 ATP-binding site [chemical binding]; other site 318161005370 ATP binding site [chemical binding]; other site 318161005371 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 318161005372 nucleotide binding region [chemical binding]; other site 318161005373 ATP-binding site [chemical binding]; other site 318161005374 Ultra-violet resistance protein B; Region: UvrB; pfam12344 318161005375 UvrB/uvrC motif; Region: UVR; pfam02151 318161005376 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318161005377 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 318161005378 DNA binding residues [nucleotide binding] 318161005379 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 318161005380 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318161005381 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 318161005382 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 318161005383 active site 318161005384 Na/Ca binding site [ion binding]; other site 318161005385 catalytic site [active] 318161005386 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 318161005387 Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from...; Region: CBM20_alpha_MTH; cd05810 318161005388 starch-binding site 2 [chemical binding]; other site 318161005389 starch-binding site 1 [chemical binding]; other site 318161005390 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 318161005391 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 318161005392 YCII-related domain; Region: YCII; cl00999 318161005393 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 318161005394 DsrC like protein; Region: DsrC; pfam04358 318161005395 DsrH like protein; Region: DsrH; pfam04077 318161005396 DsrE/DsrF-like family; Region: DrsE; cl00672 318161005397 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 318161005398 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 318161005399 YccA-like proteins; Region: YccA_like; cd10433 318161005400 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 318161005401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161005402 The 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 318161005403 dimerization interface [polypeptide binding]; other site 318161005404 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 318161005405 active site clefts [active] 318161005406 zinc binding site [ion binding]; other site 318161005407 dimer interface [polypeptide binding]; other site 318161005408 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318161005409 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 318161005410 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 318161005411 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 318161005412 metal binding site [ion binding]; metal-binding site 318161005413 dimer interface [polypeptide binding]; other site 318161005414 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 318161005415 ArsC family; Region: ArsC; pfam03960 318161005416 putative catalytic residues [active] 318161005417 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 318161005418 HPr interaction site; other site 318161005419 glycerol kinase (GK) interaction site [polypeptide binding]; other site 318161005420 active site 318161005421 phosphorylation site [posttranslational modification] 318161005422 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 318161005423 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318161005424 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 318161005425 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318161005426 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 318161005427 dimerization domain swap beta strand [polypeptide binding]; other site 318161005428 regulatory protein interface [polypeptide binding]; other site 318161005429 active site 318161005430 regulatory phosphorylation site [posttranslational modification]; other site 318161005431 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 318161005432 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318161005433 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318161005434 DNA binding site [nucleotide binding] 318161005435 domain linker motif; other site 318161005436 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 318161005437 putative dimerization interface [polypeptide binding]; other site 318161005438 putative ligand binding site [chemical binding]; other site 318161005439 Protein of unknown function (DUF808); Region: DUF808; pfam05661 318161005440 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 318161005441 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 318161005442 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 318161005443 NAD binding site [chemical binding]; other site 318161005444 Phe binding site; other site 318161005445 Cupin superfamily protein; Region: Cupin_4; pfam08007 318161005446 adenylosuccinate lyase; Provisional; Region: PRK09285 318161005447 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 318161005448 tetramer interface [polypeptide binding]; other site 318161005449 active site 318161005450 putative lysogenization regulator; Reviewed; Region: PRK00218 318161005451 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 318161005452 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 318161005453 PAS domain S-box; Region: sensory_box; TIGR00229 318161005454 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 318161005455 putative active site [active] 318161005456 heme pocket [chemical binding]; other site 318161005457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161005458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161005459 metal binding site [ion binding]; metal-binding site 318161005460 active site 318161005461 I-site; other site 318161005462 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 318161005463 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 318161005464 active site 318161005465 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 318161005466 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 318161005467 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318161005468 DNA-binding site [nucleotide binding]; DNA binding site 318161005469 RNA-binding motif; other site 318161005470 Uncharacterized conserved protein [Function unknown]; Region: COG2127 318161005471 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 318161005472 Clp amino terminal domain; Region: Clp_N; pfam02861 318161005473 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 318161005474 Walker A motif; other site 318161005475 ATP binding site [chemical binding]; other site 318161005476 Walker B motif; other site 318161005477 arginine finger; other site 318161005478 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 318161005479 Walker A motif; other site 318161005480 ATP binding site [chemical binding]; other site 318161005481 Walker B motif; other site 318161005482 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318161005483 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 318161005484 rRNA binding site [nucleotide binding]; other site 318161005485 predicted 30S ribosome binding site; other site 318161005486 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 318161005487 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 318161005488 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 318161005489 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 318161005490 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 318161005491 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318161005492 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 318161005493 PA/protease or protease-like domain interface [polypeptide binding]; other site 318161005494 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 318161005495 Peptidase family M28; Region: Peptidase_M28; pfam04389 318161005496 metal binding site [ion binding]; metal-binding site 318161005497 UMP phosphatase; Provisional; Region: PRK10444 318161005498 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 318161005499 active site 318161005500 motif I; other site 318161005501 motif II; other site 318161005502 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 318161005503 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 318161005504 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 318161005505 Ligand Binding Site [chemical binding]; other site 318161005506 universal stress protein UspE; Provisional; Region: PRK11175 318161005507 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 318161005508 Ligand Binding Site [chemical binding]; other site 318161005509 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 318161005510 Ligand Binding Site [chemical binding]; other site 318161005511 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 318161005512 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 318161005513 ligand binding site [chemical binding]; other site 318161005514 flexible hinge region; other site 318161005515 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 318161005516 putative switch regulator; other site 318161005517 non-specific DNA interactions [nucleotide binding]; other site 318161005518 DNA binding site [nucleotide binding] 318161005519 sequence specific DNA binding site [nucleotide binding]; other site 318161005520 putative cAMP binding site [chemical binding]; other site 318161005521 Family description; Region: DsbD_2; pfam13386 318161005522 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 318161005523 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 318161005524 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318161005525 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 318161005526 metal-binding site [ion binding] 318161005527 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318161005528 Soluble P-type ATPase [General function prediction only]; Region: COG4087 318161005529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 318161005530 FixH; Region: FixH; pfam05751 318161005531 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 318161005532 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318161005533 Cytochrome c; Region: Cytochrom_C; pfam00034 318161005534 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 318161005535 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 318161005536 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 318161005537 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 318161005538 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 318161005539 Low-spin heme binding site [chemical binding]; other site 318161005540 Putative water exit pathway; other site 318161005541 Binuclear center (active site) [active] 318161005542 Putative proton exit pathway; other site 318161005543 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 318161005544 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 318161005545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161005546 Zn2+ binding site [ion binding]; other site 318161005547 Mg2+ binding site [ion binding]; other site 318161005548 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 318161005549 Int/Topo IB signature motif; other site 318161005550 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 318161005551 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161005552 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161005553 catalytic residue [active] 318161005554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161005555 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161005556 RES domain; Region: RES; smart00953 318161005557 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 318161005558 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161005559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161005560 active site 318161005561 I-site; other site 318161005562 metal binding site [ion binding]; metal-binding site 318161005563 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 318161005564 electron transport complex protein RsxA; Provisional; Region: PRK05151 318161005565 ferredoxin; Provisional; Region: PRK08764 318161005566 Putative Fe-S cluster; Region: FeS; pfam04060 318161005567 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 318161005568 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 318161005569 SLBB domain; Region: SLBB; pfam10531 318161005570 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 318161005571 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 318161005572 electron transport complex protein RnfG; Validated; Region: PRK01908 318161005573 electron transport complex RsxE subunit; Provisional; Region: PRK12405 318161005574 endonuclease III; Provisional; Region: PRK10702 318161005575 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318161005576 minor groove reading motif; other site 318161005577 helix-hairpin-helix signature motif; other site 318161005578 substrate binding pocket [chemical binding]; other site 318161005579 active site 318161005580 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 318161005581 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 318161005582 active site 318161005583 substrate binding pocket [chemical binding]; other site 318161005584 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 318161005585 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161005586 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 318161005587 dimer interface [polypeptide binding]; other site 318161005588 active site 318161005589 metal binding site [ion binding]; metal-binding site 318161005590 glutathione binding site [chemical binding]; other site 318161005591 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161005592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161005593 Coenzyme A binding pocket [chemical binding]; other site 318161005594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161005595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161005596 The 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 318161005597 dimerization interface [polypeptide binding]; other site 318161005598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161005599 short chain dehydrogenase; Provisional; Region: PRK08219 318161005600 NAD(P) binding site [chemical binding]; other site 318161005601 active site 318161005602 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 318161005603 CoA binding domain; Region: CoA_binding_2; pfam13380 318161005604 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 318161005605 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 318161005606 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161005607 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161005608 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161005609 metal binding site [ion binding]; metal-binding site 318161005610 active site 318161005611 I-site; other site 318161005612 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161005613 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161005614 DNA-binding interface [nucleotide binding]; DNA binding site 318161005615 Integrase core domain; Region: rve; pfam00665 318161005616 Ecotin; Region: Ecotin; pfam03974 318161005617 secondary substrate binding site; other site 318161005618 primary substrate binding site; other site 318161005619 inhibition loop; other site 318161005620 dimerization interface [polypeptide binding]; other site 318161005621 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 318161005622 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 318161005623 Walker A motif; other site 318161005624 ATP binding site [chemical binding]; other site 318161005625 Walker B motif; other site 318161005626 arginine finger; other site 318161005627 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 318161005628 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 318161005629 RuvA N terminal domain; Region: RuvA_N; pfam01330 318161005630 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 318161005631 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 318161005632 active site 318161005633 putative DNA-binding cleft [nucleotide binding]; other site 318161005634 dimer interface [polypeptide binding]; other site 318161005635 hypothetical protein; Validated; Region: PRK00110 318161005636 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 318161005637 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 318161005638 dimer interface [polypeptide binding]; other site 318161005639 anticodon binding site; other site 318161005640 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 318161005641 homodimer interface [polypeptide binding]; other site 318161005642 motif 1; other site 318161005643 active site 318161005644 motif 2; other site 318161005645 GAD domain; Region: GAD; pfam02938 318161005646 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 318161005647 active site 318161005648 motif 3; other site 318161005649 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161005650 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 318161005651 substrate binding pocket [chemical binding]; other site 318161005652 membrane-bound complex binding site; other site 318161005653 hinge residues; other site 318161005654 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 318161005655 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161005656 substrate binding pocket [chemical binding]; other site 318161005657 membrane-bound complex binding site; other site 318161005658 hinge residues; other site 318161005659 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 318161005660 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161005661 substrate binding pocket [chemical binding]; other site 318161005662 membrane-bound complex binding site; other site 318161005663 hinge residues; other site 318161005664 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161005665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161005666 metal binding site [ion binding]; metal-binding site 318161005667 active site 318161005668 I-site; other site 318161005669 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161005670 S-adenosylmethionine binding site [chemical binding]; other site 318161005671 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161005672 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161005673 S-adenosylmethionine binding site [chemical binding]; other site 318161005674 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 318161005675 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 318161005676 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 318161005677 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 318161005678 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 318161005679 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 318161005680 putative substrate binding pocket [chemical binding]; other site 318161005681 trimer interface [polypeptide binding]; other site 318161005682 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 318161005683 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 318161005684 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 318161005685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161005686 Walker A/P-loop; other site 318161005687 ATP binding site [chemical binding]; other site 318161005688 ABC transporter signature motif; other site 318161005689 Walker B; other site 318161005690 D-loop; other site 318161005691 H-loop/switch region; other site 318161005692 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 318161005693 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 318161005694 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 318161005695 active site 318161005696 FMN binding site [chemical binding]; other site 318161005697 2,4-decadienoyl-CoA binding site; other site 318161005698 catalytic residue [active] 318161005699 4Fe-4S cluster binding site [ion binding]; other site 318161005700 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 318161005701 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161005702 protease 4; Provisional; Region: PRK10949 318161005703 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 318161005704 tandem repeat interface [polypeptide binding]; other site 318161005705 oligomer interface [polypeptide binding]; other site 318161005706 active site residues [active] 318161005707 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318161005708 tandem repeat interface [polypeptide binding]; other site 318161005709 oligomer interface [polypeptide binding]; other site 318161005710 active site residues [active] 318161005711 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 318161005712 active site 318161005713 homodimer interface [polypeptide binding]; other site 318161005714 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 318161005715 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 318161005716 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 318161005717 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 318161005718 putative active site [active] 318161005719 Zn binding site [ion binding]; other site 318161005720 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161005721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161005722 active site 318161005723 phosphorylation site [posttranslational modification] 318161005724 intermolecular recognition site; other site 318161005725 dimerization interface [polypeptide binding]; other site 318161005726 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 318161005727 DNA binding site [nucleotide binding] 318161005728 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318161005729 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 318161005730 active site 318161005731 catalytic triad [active] 318161005732 oxyanion hole [active] 318161005733 CAAX protease self-immunity; Region: Abi; pfam02517 318161005734 hypothetical protein; Provisional; Region: PRK11111 318161005735 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161005736 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318161005737 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161005738 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 318161005739 Fumarase C-terminus; Region: Fumerase_C; pfam05683 318161005740 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 318161005741 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318161005742 chorismate binding enzyme; Region: Chorismate_bind; cl10555 318161005743 Bacterial Ig-like domain; Region: Big_5; pfam13205 318161005744 Bacterial Ig-like domain; Region: Big_5; pfam13205 318161005745 Bacterial Ig-like domain; Region: Big_5; pfam13205 318161005746 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 318161005747 Bacterial Ig-like domain; Region: Big_5; pfam13205 318161005748 Bacterial Ig-like domain; Region: Big_5; pfam13205 318161005749 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 318161005750 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 318161005751 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 318161005752 ligand binding site [chemical binding]; other site 318161005753 flexible hinge region; other site 318161005754 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 318161005755 non-specific DNA interactions [nucleotide binding]; other site 318161005756 DNA binding site [nucleotide binding] 318161005757 sequence specific DNA binding site [nucleotide binding]; other site 318161005758 putative cAMP binding site [chemical binding]; other site 318161005759 Response regulator receiver domain; Region: Response_reg; pfam00072 318161005760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161005761 active site 318161005762 phosphorylation site [posttranslational modification] 318161005763 intermolecular recognition site; other site 318161005764 dimerization interface [polypeptide binding]; other site 318161005765 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318161005766 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 318161005767 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318161005768 putative active site [active] 318161005769 heme pocket [chemical binding]; other site 318161005770 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318161005771 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 318161005772 putative active site [active] 318161005773 heme pocket [chemical binding]; other site 318161005774 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 318161005775 putative active site [active] 318161005776 heme pocket [chemical binding]; other site 318161005777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161005778 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 318161005779 dimer interface [polypeptide binding]; other site 318161005780 phosphorylation site [posttranslational modification] 318161005781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161005782 ATP binding site [chemical binding]; other site 318161005783 Mg2+ binding site [ion binding]; other site 318161005784 G-X-G motif; other site 318161005785 Response regulator receiver domain; Region: Response_reg; pfam00072 318161005786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161005787 active site 318161005788 phosphorylation site [posttranslational modification] 318161005789 intermolecular recognition site; other site 318161005790 dimerization interface [polypeptide binding]; other site 318161005791 chromosome segregation protein; Provisional; Region: PRK02224 318161005792 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161005793 RHS Repeat; Region: RHS_repeat; pfam05593 318161005794 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161005795 RHS Repeat; Region: RHS_repeat; pfam05593 318161005796 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161005797 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161005798 RHS Repeat; Region: RHS_repeat; pfam05593 318161005799 RHS Repeat; Region: RHS_repeat; pfam05593 318161005800 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161005801 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161005802 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318161005803 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161005804 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161005805 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161005806 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318161005807 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161005808 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318161005809 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161005810 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 318161005811 TPR motif; other site 318161005812 binding surface 318161005813 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 318161005814 binding surface 318161005815 TPR motif; other site 318161005816 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 318161005817 TPR motif; other site 318161005818 binding surface 318161005819 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161005820 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161005821 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 318161005822 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 318161005823 active site 318161005824 Helix-turn-helix domain; Region: HTH_18; pfam12833 318161005825 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_5; cd07238 318161005826 dimer interface [polypeptide binding]; other site 318161005827 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161005828 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 318161005829 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318161005830 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 318161005831 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 318161005832 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 318161005833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161005834 NAD(P) binding site [chemical binding]; other site 318161005835 active site 318161005836 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318161005837 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 318161005838 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 318161005839 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 318161005840 substrate binding site [chemical binding]; other site 318161005841 oxyanion hole (OAH) forming residues; other site 318161005842 trimer interface [polypeptide binding]; other site 318161005843 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 318161005844 enoyl-CoA hydratase; Provisional; Region: PRK09076 318161005845 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 318161005846 substrate binding site [chemical binding]; other site 318161005847 oxyanion hole (OAH) forming residues; other site 318161005848 trimer interface [polypeptide binding]; other site 318161005849 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318161005850 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 318161005851 active site 318161005852 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 318161005853 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 318161005854 tetrameric interface [polypeptide binding]; other site 318161005855 NAD binding site [chemical binding]; other site 318161005856 catalytic residues [active] 318161005857 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 318161005858 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 318161005859 dimer interface [polypeptide binding]; other site 318161005860 active site 318161005861 beta-hexosaminidase; Provisional; Region: PRK05337 318161005862 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 318161005863 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 318161005864 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 318161005865 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 318161005866 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 318161005867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161005868 catalytic residue [active] 318161005869 DNA gyrase subunit A; Validated; Region: PRK05560 318161005870 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 318161005871 CAP-like domain; other site 318161005872 active site 318161005873 primary dimer interface [polypeptide binding]; other site 318161005874 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318161005875 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318161005876 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318161005877 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318161005878 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318161005879 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 318161005880 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 318161005881 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161005882 S-adenosylmethionine binding site [chemical binding]; other site 318161005883 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318161005884 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 318161005885 motif II; other site 318161005886 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 318161005887 ATP cone domain; Region: ATP-cone; pfam03477 318161005888 Class I ribonucleotide reductase; Region: RNR_I; cd01679 318161005889 active site 318161005890 dimer interface [polypeptide binding]; other site 318161005891 catalytic residues [active] 318161005892 effector binding site; other site 318161005893 R2 peptide binding site; other site 318161005894 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 318161005895 dimer interface [polypeptide binding]; other site 318161005896 putative radical transfer pathway; other site 318161005897 diiron center [ion binding]; other site 318161005898 tyrosyl radical; other site 318161005899 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 318161005900 catalytic loop [active] 318161005901 iron binding site [ion binding]; other site 318161005902 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 318161005903 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 318161005904 putative active site [active] 318161005905 putative CoA binding site [chemical binding]; other site 318161005906 nudix motif; other site 318161005907 metal binding site [ion binding]; metal-binding site 318161005908 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 318161005909 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 318161005910 putative dimer interface [polypeptide binding]; other site 318161005911 putative anticodon binding site; other site 318161005912 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 318161005913 homodimer interface [polypeptide binding]; other site 318161005914 motif 1; other site 318161005915 motif 2; other site 318161005916 active site 318161005917 motif 3; other site 318161005918 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 318161005919 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 318161005920 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 318161005921 phosphate binding site [ion binding]; other site 318161005922 putative substrate binding pocket [chemical binding]; other site 318161005923 dimer interface [polypeptide binding]; other site 318161005924 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 318161005925 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161005926 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161005927 ABC transporter; Region: ABC_tran_2; pfam12848 318161005928 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161005929 FOG: CBS domain [General function prediction only]; Region: COG0517 318161005930 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_24; cd04637 318161005931 HAMP domain; Region: HAMP; pfam00672 318161005932 dimerization interface [polypeptide binding]; other site 318161005933 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161005934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161005935 dimer interface [polypeptide binding]; other site 318161005936 putative CheW interface [polypeptide binding]; other site 318161005937 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 318161005938 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 318161005939 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 318161005940 active site 318161005941 substrate binding site [chemical binding]; other site 318161005942 metal binding site [ion binding]; metal-binding site 318161005943 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318161005944 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 318161005945 Subunit I/III interface [polypeptide binding]; other site 318161005946 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 318161005947 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 318161005948 GAF domain; Region: GAF; pfam01590 318161005949 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 318161005950 Walker A motif; other site 318161005951 ATP binding site [chemical binding]; other site 318161005952 Walker B motif; other site 318161005953 arginine finger; other site 318161005954 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 318161005955 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 318161005956 eukaryotic Lanthionine synthetase C-like protein. This family contains the lanthionine synthetase C-like proteins 1 and 2 which are related to the bacterial lanthionine synthetase components C (LanC). LANCL1 and LANCL2 (testes-specific adriamycin...; Region: euk_LANCL; cd04794 318161005957 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 318161005958 active site 318161005959 zinc binding site [ion binding]; other site 318161005960 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 318161005961 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 318161005962 Subunit I/III interface [polypeptide binding]; other site 318161005963 MoxR-like ATPases [General function prediction only]; Region: COG0714 318161005964 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 318161005965 Walker A motif; other site 318161005966 ATP binding site [chemical binding]; other site 318161005967 Walker B motif; other site 318161005968 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 318161005969 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 318161005970 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 318161005971 metal ion-dependent adhesion site (MIDAS); other site 318161005972 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 318161005973 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 318161005974 D-pathway; other site 318161005975 Low-spin heme binding site [chemical binding]; other site 318161005976 Putative water exit pathway; other site 318161005977 K-pathway; other site 318161005978 Binuclear center (active site) [active] 318161005979 Putative proton exit pathway; other site 318161005980 Cytochrome c; Region: Cytochrom_C; pfam00034 318161005981 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 318161005982 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 318161005983 phosphoglucomutase; Validated; Region: PRK07564 318161005984 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 318161005985 active site 318161005986 substrate binding site [chemical binding]; other site 318161005987 metal binding site [ion binding]; metal-binding site 318161005988 SeqA protein; Region: SeqA; cl11470 318161005989 SeqA protein; Region: SeqA; pfam03925 318161005990 PGAP1-like protein; Region: PGAP1; pfam07819 318161005991 acyl-CoA esterase; Provisional; Region: PRK10673 318161005992 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 318161005993 LexA regulated protein; Provisional; Region: PRK11675 318161005994 flavodoxin FldA; Validated; Region: PRK09267 318161005995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 318161005996 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 318161005997 elongation factor P; Validated; Region: PRK00529 318161005998 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 318161005999 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 318161006000 RNA binding site [nucleotide binding]; other site 318161006001 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 318161006002 RNA binding site [nucleotide binding]; other site 318161006003 aminotransferase AlaT; Validated; Region: PRK09265 318161006004 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 318161006005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161006006 homodimer interface [polypeptide binding]; other site 318161006007 catalytic residue [active] 318161006008 5'-nucleotidase; Provisional; Region: PRK03826 318161006009 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 318161006010 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161006011 Zn2+ binding site [ion binding]; other site 318161006012 Mg2+ binding site [ion binding]; other site 318161006013 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 318161006014 Response regulator receiver domain; Region: Response_reg; pfam00072 318161006015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161006016 active site 318161006017 phosphorylation site [posttranslational modification] 318161006018 intermolecular recognition site; other site 318161006019 dimerization interface [polypeptide binding]; other site 318161006020 PAS fold; Region: PAS; pfam00989 318161006021 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 318161006022 PAS domain; Region: PAS_9; pfam13426 318161006023 putative active site [active] 318161006024 heme pocket [chemical binding]; other site 318161006025 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161006026 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161006027 metal binding site [ion binding]; metal-binding site 318161006028 active site 318161006029 I-site; other site 318161006030 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 318161006031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161006032 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161006033 active site 318161006034 phosphorylation site [posttranslational modification] 318161006035 intermolecular recognition site; other site 318161006036 dimerization interface [polypeptide binding]; other site 318161006037 PAS fold; Region: PAS; pfam00989 318161006038 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 318161006039 putative active site [active] 318161006040 heme pocket [chemical binding]; other site 318161006041 PAS domain S-box; Region: sensory_box; TIGR00229 318161006042 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 318161006043 putative active site [active] 318161006044 heme pocket [chemical binding]; other site 318161006045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161006046 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 318161006047 dimer interface [polypeptide binding]; other site 318161006048 phosphorylation site [posttranslational modification] 318161006049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161006050 ATP binding site [chemical binding]; other site 318161006051 Mg2+ binding site [ion binding]; other site 318161006052 G-X-G motif; other site 318161006053 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 318161006054 PAS fold; Region: PAS_3; pfam08447 318161006055 putative active site [active] 318161006056 heme pocket [chemical binding]; other site 318161006057 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161006058 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161006059 metal binding site [ion binding]; metal-binding site 318161006060 active site 318161006061 I-site; other site 318161006062 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 318161006063 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 318161006064 putative catalytic cysteine [active] 318161006065 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 318161006066 putative active site [active] 318161006067 metal binding site [ion binding]; metal-binding site 318161006068 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 318161006069 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161006070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161006071 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 318161006072 Domain interface; other site 318161006073 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 318161006074 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 318161006075 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318161006076 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 318161006077 C-terminal domain interface [polypeptide binding]; other site 318161006078 GSH binding site (G-site) [chemical binding]; other site 318161006079 dimer interface [polypeptide binding]; other site 318161006080 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318161006081 MarR family; Region: MarR; pfam01047 318161006082 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 318161006083 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318161006084 FAD binding domain; Region: FAD_binding_4; pfam01565 318161006085 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 318161006086 phosphoenolpyruvate synthase; Validated; Region: PRK06464 318161006087 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 318161006088 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 318161006089 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318161006090 PEP synthetase regulatory protein; Provisional; Region: PRK05339 318161006091 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 318161006092 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318161006093 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 318161006094 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318161006095 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 318161006096 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161006097 catalytic residue [active] 318161006098 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 318161006099 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 318161006100 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 318161006101 Ligand Binding Site [chemical binding]; other site 318161006102 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 318161006103 TIGR03503 family protein; Region: TIGR03503 318161006104 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 318161006105 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 318161006106 active site 318161006107 catalytic site [active] 318161006108 substrate binding site [chemical binding]; other site 318161006109 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 318161006110 RNA/DNA hybrid binding site [nucleotide binding]; other site 318161006111 active site 318161006112 Methyltransferase domain; Region: Methyltransf_11; pfam08241 318161006113 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 318161006114 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 318161006115 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161006116 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161006117 catalytic residue [active] 318161006118 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161006119 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161006120 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 318161006121 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161006122 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 318161006123 AsmA family; Region: AsmA; pfam05170 318161006124 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 318161006125 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 318161006126 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318161006127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161006128 putative substrate translocation pore; other site 318161006129 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 318161006130 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 318161006131 active site 318161006132 catalytic site [active] 318161006133 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318161006134 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161006135 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 318161006136 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 318161006137 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 318161006138 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 318161006139 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318161006140 Ca binding site [ion binding]; other site 318161006141 active site 318161006142 homodimer interface [polypeptide binding]; other site 318161006143 catalytic site [active] 318161006144 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 318161006145 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 318161006146 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 318161006147 active site 318161006148 catalytic site [active] 318161006149 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 318161006150 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 318161006151 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 318161006152 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161006153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161006154 Coenzyme A binding pocket [chemical binding]; other site 318161006155 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318161006156 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318161006157 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 318161006158 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 318161006159 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 318161006160 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318161006161 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 318161006162 Sulfate transporter family; Region: Sulfate_transp; pfam00916 318161006163 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 318161006164 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 318161006165 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161006166 putative substrate translocation pore; other site 318161006167 acetyl-CoA synthetase; Provisional; Region: PRK00174 318161006168 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 318161006169 active site 318161006170 CoA binding site [chemical binding]; other site 318161006171 acyl-activating enzyme (AAE) consensus motif; other site 318161006172 AMP binding site [chemical binding]; other site 318161006173 acetate binding site [chemical binding]; other site 318161006174 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 318161006175 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 318161006176 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 318161006177 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161006178 S-adenosylmethionine binding site [chemical binding]; other site 318161006179 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 318161006180 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 318161006181 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 318161006182 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 318161006183 active site 318161006184 PilZ domain; Region: PilZ; cl01260 318161006185 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 318161006186 DNA polymerase III subunit delta'; Validated; Region: PRK08485 318161006187 thymidylate kinase; Validated; Region: tmk; PRK00698 318161006188 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 318161006189 TMP-binding site; other site 318161006190 ATP-binding site [chemical binding]; other site 318161006191 YceG-like family; Region: YceG; pfam02618 318161006192 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 318161006193 dimerization interface [polypeptide binding]; other site 318161006194 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 318161006195 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 318161006196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161006197 catalytic residue [active] 318161006198 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 318161006199 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 318161006200 ATP-binding site [chemical binding]; other site 318161006201 Sugar specificity; other site 318161006202 Pyrimidine base specificity; other site 318161006203 antiporter inner membrane protein; Provisional; Region: PRK11670 318161006204 Domain of unknown function DUF59; Region: DUF59; pfam01883 318161006205 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 318161006206 Walker A motif; other site 318161006207 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 318161006208 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 318161006209 active site 318161006210 HIGH motif; other site 318161006211 KMSKS motif; other site 318161006212 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 318161006213 tRNA binding surface [nucleotide binding]; other site 318161006214 anticodon binding site; other site 318161006215 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 318161006216 dimer interface [polypeptide binding]; other site 318161006217 putative tRNA-binding site [nucleotide binding]; other site 318161006218 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 318161006219 Transposase, Mutator family; Region: Transposase_mut; pfam00872 318161006220 MULE transposase domain; Region: MULE; pfam10551 318161006221 inosine-5'-monophosphate dehydrogenase; Provisional; Region: PTZ00314 318161006222 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161006223 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161006224 Coenzyme A binding pocket [chemical binding]; other site 318161006225 Transposase; Region: HTH_Tnp_1; cl17663 318161006226 Homeodomain-like domain; Region: HTH_32; pfam13565 318161006227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 318161006228 Integrase core domain; Region: rve; pfam00665 318161006229 Integrase core domain; Region: rve_3; pfam13683 318161006230 Glyco_18 domain; Region: Glyco_18; smart00636 318161006231 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 318161006232 active site 318161006233 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161006234 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_16; cd07263 318161006235 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 318161006236 Uncharacterized conserved protein [Function unknown]; Region: COG0327 318161006237 asparagine synthetase B; Provisional; Region: asnB; PRK09431 318161006238 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 318161006239 active site 318161006240 dimer interface [polypeptide binding]; other site 318161006241 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 318161006242 Ligand Binding Site [chemical binding]; other site 318161006243 Molecular Tunnel; other site 318161006244 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 318161006245 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 318161006246 active site 318161006247 intersubunit interface [polypeptide binding]; other site 318161006248 catalytic residue [active] 318161006249 phosphogluconate dehydratase; Validated; Region: PRK09054 318161006250 6-phosphogluconate dehydratase; Region: edd; TIGR01196 318161006251 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 318161006252 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 318161006253 putative active site [active] 318161006254 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 318161006255 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 318161006256 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 318161006257 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 318161006258 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 318161006259 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 318161006260 putative active site [active] 318161006261 pyruvate kinase; Provisional; Region: PRK05826 318161006262 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 318161006263 domain interfaces; other site 318161006264 active site 318161006265 Protein of unknown function (DUF998); Region: DUF998; pfam06197 318161006266 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318161006267 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 318161006268 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318161006269 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 318161006270 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 318161006271 ATP binding site [chemical binding]; other site 318161006272 putative Mg++ binding site [ion binding]; other site 318161006273 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 318161006274 nucleotide binding region [chemical binding]; other site 318161006275 ATP-binding site [chemical binding]; other site 318161006276 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 318161006277 GSH binding site [chemical binding]; other site 318161006278 catalytic residues [active] 318161006279 peroxidase; Provisional; Region: PRK15000 318161006280 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 318161006281 dimer interface [polypeptide binding]; other site 318161006282 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318161006283 catalytic triad [active] 318161006284 peroxidatic and resolving cysteines [active] 318161006285 Predicted permease [General function prediction only]; Region: COG2056 318161006286 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 318161006287 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161006288 active site 318161006289 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 318161006290 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 318161006291 dimerization interface [polypeptide binding]; other site 318161006292 putative ATP binding site [chemical binding]; other site 318161006293 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 318161006294 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 318161006295 active site 318161006296 substrate binding site [chemical binding]; other site 318161006297 cosubstrate binding site; other site 318161006298 catalytic site [active] 318161006299 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 318161006300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161006301 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 318161006302 substrate binding site [chemical binding]; other site 318161006303 dimerization interface [polypeptide binding]; other site 318161006304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 318161006305 CreA protein; Region: CreA; pfam05981 318161006306 putative chaperone; Provisional; Region: PRK11678 318161006307 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 318161006308 nucleotide binding site [chemical binding]; other site 318161006309 putative NEF/HSP70 interaction site [polypeptide binding]; other site 318161006310 SBD interface [polypeptide binding]; other site 318161006311 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 318161006312 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 318161006313 active site residue [active] 318161006314 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318161006315 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 318161006316 putative GSH binding site (G-site) [chemical binding]; other site 318161006317 active site cysteine [active] 318161006318 putative C-terminal domain interface [polypeptide binding]; other site 318161006319 putative dimer interface [polypeptide binding]; other site 318161006320 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 318161006321 putative N-terminal domain interface [polypeptide binding]; other site 318161006322 putative dimer interface [polypeptide binding]; other site 318161006323 putative substrate binding pocket (H-site) [chemical binding]; other site 318161006324 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 318161006325 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 318161006326 active site 318161006327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 318161006328 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 318161006329 catalytic core [active] 318161006330 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 318161006331 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 318161006332 Protein of unknown function (DUF938); Region: DUF938; pfam06080 318161006333 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 318161006334 active site 318161006335 phosphate binding residues; other site 318161006336 catalytic residues [active] 318161006337 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 318161006338 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 318161006339 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 318161006340 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 318161006341 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161006342 substrate binding pocket [chemical binding]; other site 318161006343 membrane-bound complex binding site; other site 318161006344 hinge residues; other site 318161006345 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 318161006346 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 318161006347 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 318161006348 active site 318161006349 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 318161006350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161006351 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161006352 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 318161006353 active site 318161006354 Zn binding site [ion binding]; other site 318161006355 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 318161006356 SnoaL-like domain; Region: SnoaL_3; pfam13474 318161006357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 318161006358 SEC-C motif; Region: SEC-C; pfam02810 318161006359 GAF domain; Region: GAF; cl17456 318161006360 PAS domain; Region: PAS_9; pfam13426 318161006361 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 318161006362 putative active site [active] 318161006363 heme pocket [chemical binding]; other site 318161006364 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161006365 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161006366 metal binding site [ion binding]; metal-binding site 318161006367 active site 318161006368 I-site; other site 318161006369 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 318161006370 Protein of unknown function (DUF406); Region: DUF406; pfam04175 318161006371 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 318161006372 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318161006373 PYR/PP interface [polypeptide binding]; other site 318161006374 dimer interface [polypeptide binding]; other site 318161006375 TPP binding site [chemical binding]; other site 318161006376 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 318161006377 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 318161006378 TPP-binding site [chemical binding]; other site 318161006379 dimer interface [polypeptide binding]; other site 318161006380 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 318161006381 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 318161006382 putative valine binding site [chemical binding]; other site 318161006383 dimer interface [polypeptide binding]; other site 318161006384 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 318161006385 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161006386 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 318161006387 active site 318161006388 metal binding site [ion binding]; metal-binding site 318161006389 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 318161006390 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 318161006391 DNA binding residues [nucleotide binding] 318161006392 dimer interface [polypeptide binding]; other site 318161006393 [2Fe-2S] cluster binding site [ion binding]; other site 318161006394 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 318161006395 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 318161006396 putative dimer interface [polypeptide binding]; other site 318161006397 hypothetical protein; Provisional; Region: PRK03757 318161006398 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 318161006399 heat shock protein HtpX; Provisional; Region: PRK05457 318161006400 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 318161006401 active site pocket [active] 318161006402 oxyanion hole [active] 318161006403 catalytic triad [active] 318161006404 active site nucleophile [active] 318161006405 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 318161006406 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 318161006407 inhibitor-cofactor binding pocket; inhibition site 318161006408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161006409 catalytic residue [active] 318161006410 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 318161006411 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 318161006412 active site 318161006413 NAD binding site [chemical binding]; other site 318161006414 metal binding site [ion binding]; metal-binding site 318161006415 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 318161006416 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 318161006417 Ligand binding site; other site 318161006418 oligomer interface; other site 318161006419 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 318161006420 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 318161006421 Glyco_18 domain; Region: Glyco_18; smart00636 318161006422 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 318161006423 active site 318161006424 PKD domain; Region: PKD; pfam00801 318161006425 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 318161006426 aromatic chitin/cellulose binding site residues [chemical binding]; other site 318161006427 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 318161006428 aromatic chitin/cellulose binding site residues [chemical binding]; other site 318161006429 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 318161006430 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 318161006431 active site 318161006432 metal binding site [ion binding]; metal-binding site 318161006433 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 318161006434 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 318161006435 putative hydrolase; Provisional; Region: PRK11460 318161006436 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 318161006437 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 318161006438 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161006439 Transglycosylase SLT domain; Region: SLT_2; pfam13406 318161006440 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161006441 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161006442 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318161006443 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 318161006444 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 318161006445 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161006446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161006447 active site 318161006448 phosphorylation site [posttranslational modification] 318161006449 intermolecular recognition site; other site 318161006450 dimerization interface [polypeptide binding]; other site 318161006451 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 318161006452 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 318161006453 catalytic residue [active] 318161006454 hypothetical protein; Provisional; Region: PRK11770 318161006455 Domain of unknown function (DUF307); Region: DUF307; pfam03733 318161006456 Domain of unknown function (DUF307); Region: DUF307; pfam03733 318161006457 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161006458 EVE domain; Region: EVE; cl00728 318161006459 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 318161006460 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 318161006461 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 318161006462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 318161006463 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 318161006464 binding surface 318161006465 TPR motif; other site 318161006466 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 318161006467 TPR motif; other site 318161006468 binding surface 318161006469 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 318161006470 binding surface 318161006471 TPR motif; other site 318161006472 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 318161006473 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 318161006474 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 318161006475 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 318161006476 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318161006477 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 318161006478 N-terminal plug; other site 318161006479 ligand-binding site [chemical binding]; other site 318161006480 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 318161006481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161006482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161006483 The 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 318161006484 dimerization interface [polypeptide binding]; other site 318161006485 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 318161006486 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 318161006487 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 318161006488 dimer interface [polypeptide binding]; other site 318161006489 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 318161006490 active site 318161006491 Fe binding site [ion binding]; other site 318161006492 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161006493 Homeodomain-like domain; Region: HTH_32; pfam13565 318161006494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 318161006495 Integrase core domain; Region: rve; pfam00665 318161006496 Integrase core domain; Region: rve_3; pfam13683 318161006497 Transposase; Region: HTH_Tnp_1; cl17663 318161006498 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318161006499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161006500 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 318161006501 protein binding site [polypeptide binding]; other site 318161006502 Peptidase family S41; Region: Peptidase_S41; pfam03572 318161006503 Active site serine [active] 318161006504 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318161006505 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161006506 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 318161006507 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 318161006508 DNA binding residues [nucleotide binding] 318161006509 dimer interface [polypeptide binding]; other site 318161006510 putative metal binding site [ion binding]; other site 318161006511 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 318161006512 Transposase, Mutator family; Region: Transposase_mut; pfam00872 318161006513 MULE transposase domain; Region: MULE; pfam10551 318161006514 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 318161006515 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 318161006516 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 318161006517 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161006518 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161006519 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 318161006520 Predicted permeases [General function prediction only]; Region: COG0679 318161006521 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 318161006522 CoA binding domain; Region: CoA_binding; pfam02629 318161006523 CoA-ligase; Region: Ligase_CoA; pfam00549 318161006524 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 318161006525 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 318161006526 CoA-ligase; Region: Ligase_CoA; pfam00549 318161006527 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 318161006528 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 318161006529 E3 interaction surface; other site 318161006530 lipoyl attachment site [posttranslational modification]; other site 318161006531 e3 binding domain; Region: E3_binding; pfam02817 318161006532 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318161006533 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 318161006534 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 318161006535 TPP-binding site [chemical binding]; other site 318161006536 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 318161006537 PYR/PP interface [polypeptide binding]; other site 318161006538 dimer interface [polypeptide binding]; other site 318161006539 TPP binding site [chemical binding]; other site 318161006540 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 318161006541 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 318161006542 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 318161006543 L-aspartate oxidase; Provisional; Region: PRK06175 318161006544 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318161006545 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 318161006546 SdhC subunit interface [polypeptide binding]; other site 318161006547 proximal heme binding site [chemical binding]; other site 318161006548 cardiolipin binding site; other site 318161006549 Iron-sulfur protein interface; other site 318161006550 proximal quinone binding site [chemical binding]; other site 318161006551 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 318161006552 Iron-sulfur protein interface; other site 318161006553 proximal quinone binding site [chemical binding]; other site 318161006554 SdhD (CybS) interface [polypeptide binding]; other site 318161006555 proximal heme binding site [chemical binding]; other site 318161006556 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 318161006557 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 318161006558 dimer interface [polypeptide binding]; other site 318161006559 active site 318161006560 citrylCoA binding site [chemical binding]; other site 318161006561 NADH binding [chemical binding]; other site 318161006562 cationic pore residues; other site 318161006563 oxalacetate/citrate binding site [chemical binding]; other site 318161006564 coenzyme A binding site [chemical binding]; other site 318161006565 catalytic triad [active] 318161006566 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 318161006567 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 318161006568 dimer interface [polypeptide binding]; other site 318161006569 active site residues [active] 318161006570 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 318161006571 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318161006572 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 318161006573 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161006574 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 318161006575 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161006576 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161006577 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161006578 Protein export membrane protein; Region: SecD_SecF; cl14618 318161006579 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 318161006580 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 318161006581 ATP binding site [chemical binding]; other site 318161006582 Uncharacterized conserved protein [Function unknown]; Region: COG2835 318161006583 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 318161006584 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 318161006585 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 318161006586 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161006587 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 318161006588 Walker A/P-loop; other site 318161006589 ATP binding site [chemical binding]; other site 318161006590 Q-loop/lid; other site 318161006591 ABC transporter signature motif; other site 318161006592 Walker B; other site 318161006593 D-loop; other site 318161006594 H-loop/switch region; other site 318161006595 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 318161006596 Competence protein; Region: Competence; pfam03772 318161006597 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 318161006598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 318161006599 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 318161006600 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161006601 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 318161006602 substrate binding pocket [chemical binding]; other site 318161006603 membrane-bound complex binding site; other site 318161006604 hinge residues; other site 318161006605 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 318161006606 active site 318161006607 dinuclear metal binding site [ion binding]; other site 318161006608 dimerization interface [polypeptide binding]; other site 318161006609 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161006610 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161006611 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161006612 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161006613 Protein export membrane protein; Region: SecD_SecF; cl14618 318161006614 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161006615 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 318161006616 putative active site [active] 318161006617 Zn binding site [ion binding]; other site 318161006618 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 318161006619 hydroxyglutarate oxidase; Provisional; Region: PRK11728 318161006620 hypothetical protein; Provisional; Region: PRK12705 318161006621 NosL; Region: NosL; pfam05573 318161006622 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 318161006623 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 318161006624 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318161006625 Walker A/P-loop; other site 318161006626 ATP binding site [chemical binding]; other site 318161006627 Q-loop/lid; other site 318161006628 ABC transporter signature motif; other site 318161006629 Walker B; other site 318161006630 D-loop; other site 318161006631 H-loop/switch region; other site 318161006632 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 318161006633 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 318161006634 nitrous-oxide reductase; Validated; Region: PRK02888 318161006635 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 318161006636 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 318161006637 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 318161006638 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318161006639 Flagellin N-methylase; Region: FliB; pfam03692 318161006640 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 318161006641 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 318161006642 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318161006643 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 318161006644 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318161006645 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 318161006646 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 318161006647 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 318161006648 catalytic loop [active] 318161006649 iron binding site [ion binding]; other site 318161006650 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 318161006651 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 318161006652 Ligand binding site; other site 318161006653 metal-binding site 318161006654 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 318161006655 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 318161006656 XdhC Rossmann domain; Region: XdhC_C; pfam13478 318161006657 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 318161006658 SWIM zinc finger; Region: SWIM; pfam04434 318161006659 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 318161006660 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 318161006661 ATP binding site [chemical binding]; other site 318161006662 putative Mg++ binding site [ion binding]; other site 318161006663 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 318161006664 nucleotide binding region [chemical binding]; other site 318161006665 ATP-binding site [chemical binding]; other site 318161006666 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318161006667 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 318161006668 trimer interface [polypeptide binding]; other site 318161006669 eyelet of channel; other site 318161006670 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318161006671 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 318161006672 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 318161006673 putative metal binding site [ion binding]; other site 318161006674 putative homodimer interface [polypeptide binding]; other site 318161006675 putative homotetramer interface [polypeptide binding]; other site 318161006676 putative homodimer-homodimer interface [polypeptide binding]; other site 318161006677 putative allosteric switch controlling residues; other site 318161006678 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161006679 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 318161006680 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 318161006681 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161006682 substrate binding pocket [chemical binding]; other site 318161006683 membrane-bound complex binding site; other site 318161006684 hinge residues; other site 318161006685 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 318161006686 putative substrate binding site [chemical binding]; other site 318161006687 putative ATP binding site [chemical binding]; other site 318161006688 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 318161006689 Methyltransferase domain; Region: Methyltransf_31; pfam13847 318161006690 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161006691 S-adenosylmethionine binding site [chemical binding]; other site 318161006692 Cache domain; Region: Cache_1; pfam02743 318161006693 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 318161006694 dimerization interface [polypeptide binding]; other site 318161006695 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161006696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161006697 dimer interface [polypeptide binding]; other site 318161006698 putative CheW interface [polypeptide binding]; other site 318161006699 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 318161006700 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161006701 Walker A/P-loop; other site 318161006702 ATP binding site [chemical binding]; other site 318161006703 Q-loop/lid; other site 318161006704 ABC transporter signature motif; other site 318161006705 Walker B; other site 318161006706 D-loop; other site 318161006707 H-loop/switch region; other site 318161006708 ABC transporter; Region: ABC_tran_2; pfam12848 318161006709 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161006710 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 318161006711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161006712 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 318161006713 substrate binding pocket [chemical binding]; other site 318161006714 dimerization interface [polypeptide binding]; other site 318161006715 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 318161006716 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 318161006717 putative NAD(P) binding site [chemical binding]; other site 318161006718 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 318161006719 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 318161006720 DNA binding residues [nucleotide binding] 318161006721 putative dimer interface [polypeptide binding]; other site 318161006722 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 318161006723 isovaleryl-CoA dehydrogenase; Region: PLN02519 318161006724 substrate binding site [chemical binding]; other site 318161006725 FAD binding site [chemical binding]; other site 318161006726 catalytic base [active] 318161006727 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 318161006728 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 318161006729 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 318161006730 enoyl-CoA hydratase; Provisional; Region: PRK05995 318161006731 substrate binding site [chemical binding]; other site 318161006732 oxyanion hole (OAH) forming residues; other site 318161006733 trimer interface [polypeptide binding]; other site 318161006734 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 318161006735 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318161006736 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 318161006737 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 318161006738 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 318161006739 carboxyltransferase (CT) interaction site; other site 318161006740 biotinylation site [posttranslational modification]; other site 318161006741 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 318161006742 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 318161006743 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 318161006744 active site 318161006745 catalytic residues [active] 318161006746 metal binding site [ion binding]; metal-binding site 318161006747 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 318161006748 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 318161006749 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161006750 Aerolysin toxin; Region: Aerolysin; cl03107 318161006751 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161006752 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161006753 DNA-binding interface [nucleotide binding]; DNA binding site 318161006754 Integrase core domain; Region: rve; pfam00665 318161006755 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318161006756 TPR repeat; Region: TPR_11; pfam13414 318161006757 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 318161006758 binding surface 318161006759 TPR motif; other site 318161006760 TPR repeat; Region: TPR_11; pfam13414 318161006761 TPR repeat; Region: TPR_11; pfam13414 318161006762 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 318161006763 binding surface 318161006764 TPR motif; other site 318161006765 TPR repeat; Region: TPR_11; pfam13414 318161006766 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318161006767 MarR family; Region: MarR_2; pfam12802 318161006768 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161006769 S-adenosylmethionine binding site [chemical binding]; other site 318161006770 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161006771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161006772 Coenzyme A binding pocket [chemical binding]; other site 318161006773 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 318161006774 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 318161006775 generic binding surface I; other site 318161006776 generic binding surface II; other site 318161006777 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 318161006778 putative active site [active] 318161006779 putative catalytic site [active] 318161006780 putative Mg binding site IVb [ion binding]; other site 318161006781 putative phosphate binding site [ion binding]; other site 318161006782 putative DNA binding site [nucleotide binding]; other site 318161006783 putative Mg binding site IVa [ion binding]; other site 318161006784 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 318161006785 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318161006786 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 318161006787 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 318161006788 YceI-like domain; Region: YceI; pfam04264 318161006789 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 318161006790 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 318161006791 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 318161006792 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 318161006793 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 318161006794 agmatinase; Region: agmatinase; TIGR01230 318161006795 oligomer interface [polypeptide binding]; other site 318161006796 putative active site [active] 318161006797 Mn binding site [ion binding]; other site 318161006798 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 318161006799 arginine decarboxylase; Provisional; Region: PRK05354 318161006800 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 318161006801 dimer interface [polypeptide binding]; other site 318161006802 active site 318161006803 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318161006804 catalytic residues [active] 318161006805 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 318161006806 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 318161006807 S1 domain; Region: S1_2; pfam13509 318161006808 S1 domain; Region: S1_2; pfam13509 318161006809 hypothetical protein; Provisional; Region: PRK11239 318161006810 Protein of unknown function, DUF480; Region: DUF480; pfam04337 318161006811 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 318161006812 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 318161006813 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 318161006814 Walker A/P-loop; other site 318161006815 ATP binding site [chemical binding]; other site 318161006816 Q-loop/lid; other site 318161006817 ABC transporter signature motif; other site 318161006818 Walker B; other site 318161006819 D-loop; other site 318161006820 H-loop/switch region; other site 318161006821 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318161006822 DNA-binding site [nucleotide binding]; DNA binding site 318161006823 RNA-binding motif; other site 318161006824 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 318161006825 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161006826 S-adenosylmethionine binding site [chemical binding]; other site 318161006827 exonuclease I; Provisional; Region: sbcB; PRK11779 318161006828 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 318161006829 active site 318161006830 catalytic site [active] 318161006831 substrate binding site [chemical binding]; other site 318161006832 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 318161006833 cytidine deaminase; Provisional; Region: PRK09027 318161006834 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 318161006835 active site 318161006836 catalytic motif [active] 318161006837 Zn binding site [ion binding]; other site 318161006838 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 318161006839 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 318161006840 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 318161006841 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 318161006842 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 318161006843 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 318161006844 dimer interface [polypeptide binding]; other site 318161006845 active site 318161006846 acyl carrier protein; Provisional; Region: acpP; PRK00982 318161006847 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 318161006848 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 318161006849 NAD(P) binding site [chemical binding]; other site 318161006850 homotetramer interface [polypeptide binding]; other site 318161006851 homodimer interface [polypeptide binding]; other site 318161006852 active site 318161006853 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 318161006854 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 318161006855 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 318161006856 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 318161006857 dimer interface [polypeptide binding]; other site 318161006858 active site 318161006859 CoA binding pocket [chemical binding]; other site 318161006860 putative phosphate acyltransferase; Provisional; Region: PRK05331 318161006861 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 318161006862 hypothetical protein; Provisional; Region: PRK11193 318161006863 Maf-like protein; Region: Maf; pfam02545 318161006864 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 318161006865 active site 318161006866 dimer interface [polypeptide binding]; other site 318161006867 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 318161006868 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 318161006869 active site 318161006870 motif I; other site 318161006871 motif II; other site 318161006872 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 318161006873 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 318161006874 RNA binding surface [nucleotide binding]; other site 318161006875 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161006876 active site 318161006877 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 318161006878 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 318161006879 homodimer interface [polypeptide binding]; other site 318161006880 oligonucleotide binding site [chemical binding]; other site 318161006881 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 318161006882 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 318161006883 Sulfate transporter family; Region: Sulfate_transp; pfam00916 318161006884 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 318161006885 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 318161006886 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 318161006887 methionine sulfoxide reductase A; Provisional; Region: PRK14054 318161006888 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 318161006889 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 318161006890 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 318161006891 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 318161006892 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 318161006893 GTP/Mg2+ binding site [chemical binding]; other site 318161006894 G4 box; other site 318161006895 G5 box; other site 318161006896 G1 box; other site 318161006897 Switch I region; other site 318161006898 G2 box; other site 318161006899 G3 box; other site 318161006900 Switch II region; other site 318161006901 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 318161006902 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318161006903 active site 318161006904 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 318161006905 transcriptional regulator HdfR; Provisional; Region: PRK03601 318161006906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161006907 The 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 318161006908 hypothetical protein; Provisional; Region: PRK11027 318161006909 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318161006910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161006911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161006912 metal binding site [ion binding]; metal-binding site 318161006913 active site 318161006914 I-site; other site 318161006915 cystathionine beta-lyase; Provisional; Region: PRK09028 318161006916 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 318161006917 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161006918 catalytic residue [active] 318161006919 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 318161006920 putative FMN binding site [chemical binding]; other site 318161006921 DoxX; Region: DoxX; pfam07681 318161006922 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 318161006923 Phosphotransferase enzyme family; Region: APH; pfam01636 318161006924 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318161006925 substrate binding site [chemical binding]; other site 318161006926 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 318161006927 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 318161006928 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161006929 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 318161006930 putative dimer interface [polypeptide binding]; other site 318161006931 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 318161006932 CoenzymeA binding site [chemical binding]; other site 318161006933 subunit interaction site [polypeptide binding]; other site 318161006934 PHB binding site; other site 318161006935 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 318161006936 CoenzymeA binding site [chemical binding]; other site 318161006937 subunit interaction site [polypeptide binding]; other site 318161006938 PHB binding site; other site 318161006939 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 318161006940 nucleotide binding site/active site [active] 318161006941 HIT family signature motif; other site 318161006942 catalytic residue [active] 318161006943 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 318161006944 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 318161006945 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 318161006946 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 318161006947 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 318161006948 DNA binding residues [nucleotide binding] 318161006949 dimerization interface [polypeptide binding]; other site 318161006950 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 318161006951 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 318161006952 active site 318161006953 interdomain interaction site; other site 318161006954 putative metal-binding site [ion binding]; other site 318161006955 nucleotide binding site [chemical binding]; other site 318161006956 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 318161006957 domain I; other site 318161006958 DNA binding groove [nucleotide binding] 318161006959 phosphate binding site [ion binding]; other site 318161006960 domain II; other site 318161006961 domain III; other site 318161006962 nucleotide binding site [chemical binding]; other site 318161006963 catalytic site [active] 318161006964 domain IV; other site 318161006965 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318161006966 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 318161006967 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 318161006968 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 318161006969 succinylarginine dihydrolase; Provisional; Region: PRK13281 318161006970 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 318161006971 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318161006972 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318161006973 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 318161006974 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318161006975 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318161006976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161006977 Zn2+ binding site [ion binding]; other site 318161006978 Mg2+ binding site [ion binding]; other site 318161006979 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 318161006980 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 318161006981 Cl binding site [ion binding]; other site 318161006982 oligomer interface [polypeptide binding]; other site 318161006983 Nucleoid-associated protein [General function prediction only]; Region: COG3081 318161006984 nucleoid-associated protein NdpA; Validated; Region: PRK00378 318161006985 hypothetical protein; Provisional; Region: PRK13689 318161006986 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 318161006987 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 318161006988 Sulfatase; Region: Sulfatase; cl17466 318161006989 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 318161006990 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 318161006991 Walker A motif; other site 318161006992 ATP binding site [chemical binding]; other site 318161006993 Walker B motif; other site 318161006994 arginine finger; other site 318161006995 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161006996 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 318161006997 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 318161006998 NAD(P) binding site [chemical binding]; other site 318161006999 catalytic residues [active] 318161007000 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 318161007001 putative catalytic site [active] 318161007002 metal binding site A [ion binding]; metal-binding site 318161007003 phosphate binding site [ion binding]; other site 318161007004 metal binding site C [ion binding]; metal-binding site 318161007005 metal binding site B [ion binding]; metal-binding site 318161007006 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318161007007 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 318161007008 dimer interface [polypeptide binding]; other site 318161007009 phosphorylation site [posttranslational modification] 318161007010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161007011 ATP binding site [chemical binding]; other site 318161007012 Mg2+ binding site [ion binding]; other site 318161007013 G-X-G motif; other site 318161007014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161007015 Response regulator receiver domain; Region: Response_reg; pfam00072 318161007016 active site 318161007017 phosphorylation site [posttranslational modification] 318161007018 intermolecular recognition site; other site 318161007019 dimerization interface [polypeptide binding]; other site 318161007020 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 318161007021 putative binding surface; other site 318161007022 active site 318161007023 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 318161007024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161007025 active site 318161007026 phosphorylation site [posttranslational modification] 318161007027 intermolecular recognition site; other site 318161007028 dimerization interface [polypeptide binding]; other site 318161007029 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 318161007030 TMAO/DMSO reductase; Reviewed; Region: PRK05363 318161007031 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 318161007032 Moco binding site; other site 318161007033 metal coordination site [ion binding]; other site 318161007034 RmuC family; Region: RmuC; pfam02646 318161007035 lytic murein transglycosylase; Provisional; Region: PRK11619 318161007036 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161007037 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161007038 catalytic residue [active] 318161007039 MoxR-like ATPases [General function prediction only]; Region: COG0714 318161007040 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 318161007041 Walker A motif; other site 318161007042 ATP binding site [chemical binding]; other site 318161007043 Walker B motif; other site 318161007044 arginine finger; other site 318161007045 Protein of unknown function DUF58; Region: DUF58; pfam01882 318161007046 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 318161007047 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 318161007048 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 318161007049 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 318161007050 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 318161007051 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 318161007052 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 318161007053 Family description; Region: UvrD_C_2; pfam13538 318161007054 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 318161007055 AAA domain; Region: AAA_30; pfam13604 318161007056 Family description; Region: UvrD_C_2; pfam13538 318161007057 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 318161007058 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 318161007059 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318161007060 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318161007061 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 318161007062 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 318161007063 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 318161007064 Peptidase family M1; Region: Peptidase_M1; pfam01433 318161007065 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 318161007066 Zn binding site [ion binding]; other site 318161007067 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 318161007068 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 318161007069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161007070 S-adenosylmethionine binding site [chemical binding]; other site 318161007071 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 318161007072 Domain of unknown function DUF20; Region: UPF0118; pfam01594 318161007073 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 318161007074 homooctamer interface [polypeptide binding]; other site 318161007075 active site 318161007076 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 318161007077 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 318161007078 putative NAD(P) binding site [chemical binding]; other site 318161007079 putative active site [active] 318161007080 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161007081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161007082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161007083 The 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 318161007084 dimerization interface [polypeptide binding]; other site 318161007085 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161007086 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 318161007087 active site 318161007088 metal binding site [ion binding]; metal-binding site 318161007089 FtsX-like permease family; Region: FtsX; pfam02687 318161007090 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 318161007091 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318161007092 Walker A/P-loop; other site 318161007093 ATP binding site [chemical binding]; other site 318161007094 Q-loop/lid; other site 318161007095 ABC transporter signature motif; other site 318161007096 Walker B; other site 318161007097 D-loop; other site 318161007098 H-loop/switch region; other site 318161007099 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 318161007100 active site 318161007101 catalytic triad [active] 318161007102 oxyanion hole [active] 318161007103 switch loop; other site 318161007104 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 318161007105 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 318161007106 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 318161007107 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 318161007108 active site 318161007109 dimer interface [polypeptide binding]; other site 318161007110 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 318161007111 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318161007112 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 318161007113 Ion transport protein; Region: Ion_trans; pfam00520 318161007114 Ion channel; Region: Ion_trans_2; pfam07885 318161007115 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 318161007116 Double zinc ribbon; Region: DZR; pfam12773 318161007117 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 318161007118 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_4; cd07268 318161007119 putative metal binding site [ion binding]; other site 318161007120 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318161007121 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 318161007122 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 318161007123 hypothetical protein; Validated; Region: PRK00153 318161007124 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 318161007125 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 318161007126 Walker A motif; other site 318161007127 ATP binding site [chemical binding]; other site 318161007128 Walker B motif; other site 318161007129 DNA polymerase III subunit delta'; Validated; Region: PRK08485 318161007130 arginine finger; other site 318161007131 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 318161007132 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 318161007133 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161007134 active site 318161007135 hypothetical protein; Provisional; Region: PRK10527 318161007136 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 318161007137 hypothetical protein; Provisional; Region: PRK05409 318161007138 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 318161007139 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 318161007140 FMN binding site [chemical binding]; other site 318161007141 active site 318161007142 catalytic residues [active] 318161007143 substrate binding site [chemical binding]; other site 318161007144 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318161007145 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 318161007146 active site 318161007147 multimer interface [polypeptide binding]; other site 318161007148 Cupin domain; Region: Cupin_2; pfam07883 318161007149 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161007150 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 318161007151 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161007152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161007153 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318161007154 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318161007155 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318161007156 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318161007157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161007158 Zn2+ binding site [ion binding]; other site 318161007159 Mg2+ binding site [ion binding]; other site 318161007160 DNA topoisomerase III; Provisional; Region: PRK07726 318161007161 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 318161007162 active site 318161007163 putative interdomain interaction site [polypeptide binding]; other site 318161007164 putative metal-binding site [ion binding]; other site 318161007165 putative nucleotide binding site [chemical binding]; other site 318161007166 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 318161007167 domain I; other site 318161007168 DNA binding groove [nucleotide binding] 318161007169 phosphate binding site [ion binding]; other site 318161007170 domain II; other site 318161007171 domain III; other site 318161007172 nucleotide binding site [chemical binding]; other site 318161007173 catalytic site [active] 318161007174 domain IV; other site 318161007175 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318161007176 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 318161007177 PA/protease or protease-like domain interface [polypeptide binding]; other site 318161007178 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318161007179 Peptidase family M28; Region: Peptidase_M28; pfam04389 318161007180 metal binding site [ion binding]; metal-binding site 318161007181 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 318161007182 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 318161007183 Family of unknown function (DUF633); Region: DUF633; pfam04816 318161007184 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318161007185 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161007186 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 318161007187 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 318161007188 Pyruvate formate lyase 1; Region: PFL1; cd01678 318161007189 coenzyme A binding site [chemical binding]; other site 318161007190 active site 318161007191 catalytic residues [active] 318161007192 glycine loop; other site 318161007193 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 318161007194 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 318161007195 FeS/SAM binding site; other site 318161007196 Protein of unknown function, DUF412; Region: DUF412; pfam04217 318161007197 propionate/acetate kinase; Provisional; Region: PRK12379 318161007198 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318161007199 nucleotide binding site [chemical binding]; other site 318161007200 butyrate kinase; Provisional; Region: PRK03011 318161007201 phosphate acetyltransferase; Reviewed; Region: PRK05632 318161007202 DRTGG domain; Region: DRTGG; pfam07085 318161007203 phosphate acetyltransferase; Region: pta; TIGR00651 318161007204 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 318161007205 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 318161007206 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318161007207 active site 318161007208 HIGH motif; other site 318161007209 nucleotide binding site [chemical binding]; other site 318161007210 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 318161007211 KMSKS motif; other site 318161007212 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 318161007213 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 318161007214 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 318161007215 G1 box; other site 318161007216 GTP/Mg2+ binding site [chemical binding]; other site 318161007217 Switch I region; other site 318161007218 G2 box; other site 318161007219 G3 box; other site 318161007220 Switch II region; other site 318161007221 G4 box; other site 318161007222 G5 box; other site 318161007223 Nucleoside recognition; Region: Gate; pfam07670 318161007224 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 318161007225 Nucleoside recognition; Region: Gate; pfam07670 318161007226 FeoA domain; Region: FeoA; pfam04023 318161007227 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161007228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161007229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318161007230 Coenzyme A binding pocket [chemical binding]; other site 318161007231 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 318161007232 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318161007233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161007234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161007235 metal binding site [ion binding]; metal-binding site 318161007236 active site 318161007237 I-site; other site 318161007238 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 318161007239 TPR motif; other site 318161007240 binding surface 318161007241 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 318161007242 binding surface 318161007243 TPR motif; other site 318161007244 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 318161007245 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 318161007246 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 318161007247 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 318161007248 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 318161007249 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 318161007250 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 318161007251 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 318161007252 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161007253 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318161007254 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161007255 DNA polymerase II; Reviewed; Region: PRK05762 318161007256 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 318161007257 active site 318161007258 catalytic site [active] 318161007259 substrate binding site [chemical binding]; other site 318161007260 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 318161007261 active site 318161007262 metal-binding site 318161007263 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 318161007264 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 318161007265 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 318161007266 hypothetical protein; Provisional; Region: PRK10621 318161007267 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318161007268 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 318161007269 hypothetical protein; Provisional; Region: PRK03641 318161007270 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 318161007271 Late competence development protein ComFB; Region: ComFB; pfam10719 318161007272 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 318161007273 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161007274 catalytic residue [active] 318161007275 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161007276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161007277 dimer interface [polypeptide binding]; other site 318161007278 putative CheW interface [polypeptide binding]; other site 318161007279 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 318161007280 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 318161007281 RNA binding surface [nucleotide binding]; other site 318161007282 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 318161007283 probable active site [active] 318161007284 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161007285 RHS Repeat; Region: RHS_repeat; pfam05593 318161007286 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 318161007287 RHS protein; Region: RHS; pfam03527 318161007288 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161007289 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161007290 Serum amyloid A protein; Region: SAA; cl02506 318161007291 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 318161007292 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161007293 Transposase [DNA replication, recombination, and repair]; Region: COG5433 318161007294 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 318161007295 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161007296 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 318161007297 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161007298 RHS Repeat; Region: RHS_repeat; pfam05593 318161007299 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 318161007300 RHS protein; Region: RHS; pfam03527 318161007301 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 318161007302 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161007303 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161007304 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 318161007305 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 318161007306 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 318161007307 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 318161007308 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 318161007309 active site 318161007310 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 318161007311 anthranilate synthase component I; Provisional; Region: PRK13564 318161007312 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 318161007313 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 318161007314 Glutamine amidotransferase class-I; Region: GATase; pfam00117 318161007315 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318161007316 glutamine binding [chemical binding]; other site 318161007317 catalytic triad [active] 318161007318 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 318161007319 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 318161007320 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 318161007321 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 318161007322 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 318161007323 active site 318161007324 ribulose/triose binding site [chemical binding]; other site 318161007325 phosphate binding site [ion binding]; other site 318161007326 substrate (anthranilate) binding pocket [chemical binding]; other site 318161007327 product (indole) binding pocket [chemical binding]; other site 318161007328 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 318161007329 active site 318161007330 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 318161007331 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 318161007332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161007333 catalytic residue [active] 318161007334 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 318161007335 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 318161007336 substrate binding site [chemical binding]; other site 318161007337 active site 318161007338 catalytic residues [active] 318161007339 heterodimer interface [polypeptide binding]; other site 318161007340 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161007341 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161007342 Sel1-like repeats; Region: SEL1; smart00671 318161007343 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318161007344 Sel1-like repeats; Region: SEL1; smart00671 318161007345 Sel1 repeat; Region: Sel1; cl02723 318161007346 Sel1-like repeats; Region: SEL1; smart00671 318161007347 Sel1-like repeats; Region: SEL1; smart00671 318161007348 Sel1 repeat; Region: Sel1; cl02723 318161007349 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 318161007350 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 318161007351 transmembrane helices; other site 318161007352 signal peptidase I; Provisional; Region: PRK10861 318161007353 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 318161007354 Catalytic site [active] 318161007355 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 318161007356 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 318161007357 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 318161007358 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 318161007359 active site 1 [active] 318161007360 dimer interface [polypeptide binding]; other site 318161007361 active site 2 [active] 318161007362 ribosome modulation factor; Provisional; Region: PRK14563 318161007363 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 318161007364 ABC transporter ATPase component; Reviewed; Region: PRK11147 318161007365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161007366 Walker A/P-loop; other site 318161007367 ATP binding site [chemical binding]; other site 318161007368 Q-loop/lid; other site 318161007369 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161007370 ABC transporter; Region: ABC_tran_2; pfam12848 318161007371 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161007372 HMG14 and HMG17; Region: HMG14_17; cl12114 318161007373 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 318161007374 catalytic residues [active] 318161007375 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 318161007376 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 318161007377 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 318161007378 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161007379 S-adenosylmethionine binding site [chemical binding]; other site 318161007380 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 318161007381 putative inner membrane peptidase; Provisional; Region: PRK11778 318161007382 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 318161007383 tandem repeat interface [polypeptide binding]; other site 318161007384 oligomer interface [polypeptide binding]; other site 318161007385 active site residues [active] 318161007386 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 318161007387 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 318161007388 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 318161007389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161007390 NAD(P) binding site [chemical binding]; other site 318161007391 active site 318161007392 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 318161007393 Helix-hairpin-helix motif; Region: HHH; pfam00633 318161007394 hypothetical protein; Provisional; Region: PRK05415 318161007395 Domain of unknown function (DUF697); Region: DUF697; cl12064 318161007396 YcjX-like family, DUF463; Region: DUF463; pfam04317 318161007397 PspC domain; Region: PspC; cl00864 318161007398 phage shock protein C; Region: phageshock_pspC; TIGR02978 318161007399 phage shock protein B; Provisional; Region: pspB; PRK09458 318161007400 phage shock protein A; Region: phageshock_pspA; TIGR02977 318161007401 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318161007402 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 318161007403 Walker A motif; other site 318161007404 ATP binding site [chemical binding]; other site 318161007405 Walker B motif; other site 318161007406 arginine finger; other site 318161007407 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161007408 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 318161007409 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 318161007410 peptide binding site [polypeptide binding]; other site 318161007411 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 318161007412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161007413 dimer interface [polypeptide binding]; other site 318161007414 conserved gate region; other site 318161007415 putative PBP binding loops; other site 318161007416 ABC-ATPase subunit interface; other site 318161007417 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 318161007418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161007419 dimer interface [polypeptide binding]; other site 318161007420 conserved gate region; other site 318161007421 putative PBP binding loops; other site 318161007422 ABC-ATPase subunit interface; other site 318161007423 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 318161007424 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 318161007425 Walker A/P-loop; other site 318161007426 ATP binding site [chemical binding]; other site 318161007427 Q-loop/lid; other site 318161007428 ABC transporter signature motif; other site 318161007429 Walker B; other site 318161007430 D-loop; other site 318161007431 H-loop/switch region; other site 318161007432 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318161007433 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 318161007434 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 318161007435 Walker A/P-loop; other site 318161007436 ATP binding site [chemical binding]; other site 318161007437 Q-loop/lid; other site 318161007438 ABC transporter signature motif; other site 318161007439 Walker B; other site 318161007440 D-loop; other site 318161007441 H-loop/switch region; other site 318161007442 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 318161007443 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 318161007444 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 318161007445 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 318161007446 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 318161007447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161007448 Coenzyme A binding pocket [chemical binding]; other site 318161007449 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318161007450 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 318161007451 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 318161007452 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 318161007453 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 318161007454 periplasmic folding chaperone; Provisional; Region: PRK10788 318161007455 SurA N-terminal domain; Region: SurA_N_3; cl07813 318161007456 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 318161007457 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 318161007458 IHF dimer interface [polypeptide binding]; other site 318161007459 IHF - DNA interface [nucleotide binding]; other site 318161007460 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 318161007461 Found in ATP-dependent protease La (LON); Region: LON; smart00464 318161007462 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 318161007463 Walker A motif; other site 318161007464 ATP binding site [chemical binding]; other site 318161007465 Walker B motif; other site 318161007466 arginine finger; other site 318161007467 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 318161007468 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 318161007469 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 318161007470 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 318161007471 Walker A motif; other site 318161007472 ATP binding site [chemical binding]; other site 318161007473 Walker B motif; other site 318161007474 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318161007475 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 318161007476 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 318161007477 oligomer interface [polypeptide binding]; other site 318161007478 active site residues [active] 318161007479 trigger factor; Provisional; Region: tig; PRK01490 318161007480 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161007481 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 318161007482 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 318161007483 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 318161007484 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 318161007485 homodimer interface [polypeptide binding]; other site 318161007486 NADP binding site [chemical binding]; other site 318161007487 substrate binding site [chemical binding]; other site 318161007488 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 318161007489 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318161007490 active site 318161007491 HIGH motif; other site 318161007492 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 318161007493 KMSKS motif; other site 318161007494 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 318161007495 tRNA binding surface [nucleotide binding]; other site 318161007496 anticodon binding site; other site 318161007497 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 318161007498 substrate binding site [chemical binding]; other site 318161007499 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 318161007500 putative active site [active] 318161007501 putative metal binding site [ion binding]; other site 318161007502 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 318161007503 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 318161007504 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318161007505 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318161007506 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 318161007507 N-terminal plug; other site 318161007508 ligand-binding site [chemical binding]; other site 318161007509 putative peptidase; Provisional; Region: PRK11649 318161007510 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 318161007511 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161007512 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161007513 AAA domain; Region: AAA_23; pfam13476 318161007514 Walker A/P-loop; other site 318161007515 ATP binding site [chemical binding]; other site 318161007516 Q-loop/lid; other site 318161007517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161007518 Q-loop/lid; other site 318161007519 ABC transporter signature motif; other site 318161007520 Walker B; other site 318161007521 D-loop; other site 318161007522 H-loop/switch region; other site 318161007523 exonuclease subunit SbcD; Provisional; Region: PRK10966 318161007524 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 318161007525 active site 318161007526 metal binding site [ion binding]; metal-binding site 318161007527 DNA binding site [nucleotide binding] 318161007528 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 318161007529 hypothetical protein; Provisional; Region: PRK10621 318161007530 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318161007531 Predicted permeases [General function prediction only]; Region: RarD; COG2962 318161007532 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 318161007533 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 318161007534 RNA binding surface [nucleotide binding]; other site 318161007535 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 318161007536 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 318161007537 putative NAD(P) binding site [chemical binding]; other site 318161007538 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 318161007539 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 318161007540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161007541 Zn2+ binding site [ion binding]; other site 318161007542 Mg2+ binding site [ion binding]; other site 318161007543 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 318161007544 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 318161007545 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 318161007546 nucleotide binding pocket [chemical binding]; other site 318161007547 K-X-D-G motif; other site 318161007548 catalytic site [active] 318161007549 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 318161007550 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 318161007551 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 318161007552 Dimer interface [polypeptide binding]; other site 318161007553 BRCT sequence motif; other site 318161007554 cell division protein ZipA; Provisional; Region: PRK03427 318161007555 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 318161007556 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 318161007557 FtsZ protein binding site [polypeptide binding]; other site 318161007558 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 318161007559 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 318161007560 Walker A/P-loop; other site 318161007561 ATP binding site [chemical binding]; other site 318161007562 Q-loop/lid; other site 318161007563 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 318161007564 ABC transporter signature motif; other site 318161007565 Walker B; other site 318161007566 D-loop; other site 318161007567 H-loop/switch region; other site 318161007568 putative sulfate transport protein CysZ; Validated; Region: PRK04949 318161007569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161007570 active site 318161007571 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 318161007572 phosphorylation site [posttranslational modification] 318161007573 intermolecular recognition site; other site 318161007574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161007575 active site 318161007576 phosphorylation site [posttranslational modification] 318161007577 intermolecular recognition site; other site 318161007578 dimerization interface [polypeptide binding]; other site 318161007579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161007580 metal binding site [ion binding]; metal-binding site 318161007581 active site 318161007582 I-site; other site 318161007583 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 318161007584 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 318161007585 dimer interface [polypeptide binding]; other site 318161007586 active site 318161007587 CoA binding pocket [chemical binding]; other site 318161007588 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 318161007589 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 318161007590 dimer interface [polypeptide binding]; other site 318161007591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161007592 catalytic residue [active] 318161007593 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 318161007594 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 318161007595 homodimer interface [polypeptide binding]; other site 318161007596 substrate-cofactor binding pocket; other site 318161007597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161007598 catalytic residue [active] 318161007599 Predicted ATPase [General function prediction only]; Region: COG1485 318161007600 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 318161007601 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 318161007602 catalytic residues [active] 318161007603 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318161007604 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161007605 active site 318161007606 serine/threonine transporter SstT; Provisional; Region: PRK13628 318161007607 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318161007608 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 318161007609 putative active site [active] 318161007610 Zn binding site [ion binding]; other site 318161007611 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 318161007612 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161007613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161007614 active site 318161007615 phosphorylation site [posttranslational modification] 318161007616 intermolecular recognition site; other site 318161007617 dimerization interface [polypeptide binding]; other site 318161007618 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 318161007619 active site 318161007620 catalytic residues [active] 318161007621 helicase 45; Provisional; Region: PTZ00424 318161007622 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 318161007623 ATP binding site [chemical binding]; other site 318161007624 putative Mg++ binding site [ion binding]; other site 318161007625 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 318161007626 nucleotide binding region [chemical binding]; other site 318161007627 ATP-binding site [chemical binding]; other site 318161007628 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 318161007629 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 318161007630 DNA binding site [nucleotide binding] 318161007631 active site 318161007632 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 318161007633 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 318161007634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161007635 AlkA N-terminal domain; Region: AlkA_N; pfam06029 318161007636 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 318161007637 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318161007638 minor groove reading motif; other site 318161007639 helix-hairpin-helix signature motif; other site 318161007640 substrate binding pocket [chemical binding]; other site 318161007641 active site 318161007642 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 318161007643 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161007644 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 318161007645 Walker A/P-loop; other site 318161007646 ATP binding site [chemical binding]; other site 318161007647 Q-loop/lid; other site 318161007648 ABC transporter signature motif; other site 318161007649 Walker B; other site 318161007650 D-loop; other site 318161007651 H-loop/switch region; other site 318161007652 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 318161007653 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318161007654 active site 318161007655 HIGH motif; other site 318161007656 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 318161007657 active site 318161007658 KMSKS motif; other site 318161007659 thymidine kinase; Provisional; Region: PRK04296 318161007660 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 318161007661 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 318161007662 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 318161007663 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 318161007664 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 318161007665 Ligand binding site [chemical binding]; other site 318161007666 Electron transfer flavoprotein domain; Region: ETF; pfam01012 318161007667 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 318161007668 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 318161007669 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 318161007670 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 318161007671 homodimer interaction site [polypeptide binding]; other site 318161007672 cofactor binding site; other site 318161007673 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 318161007674 putative trimer interface [polypeptide binding]; other site 318161007675 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 318161007676 putative CoA binding site [chemical binding]; other site 318161007677 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 318161007678 trimer interface [polypeptide binding]; other site 318161007679 active site 318161007680 substrate binding site [chemical binding]; other site 318161007681 CoA binding site [chemical binding]; other site 318161007682 prolyl-tRNA synthetase; Provisional; Region: PRK09194 318161007683 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 318161007684 dimer interface [polypeptide binding]; other site 318161007685 motif 1; other site 318161007686 active site 318161007687 motif 2; other site 318161007688 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 318161007689 putative deacylase active site [active] 318161007690 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 318161007691 active site 318161007692 motif 3; other site 318161007693 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 318161007694 anticodon binding site; other site 318161007695 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318161007696 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 318161007697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 318161007698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161007699 ATP binding site [chemical binding]; other site 318161007700 Mg2+ binding site [ion binding]; other site 318161007701 G-X-G motif; other site 318161007702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 318161007703 active site 318161007704 phosphorylation site [posttranslational modification] 318161007705 intermolecular recognition site; other site 318161007706 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 318161007707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161007708 Zn2+ binding site [ion binding]; other site 318161007709 Mg2+ binding site [ion binding]; other site 318161007710 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318161007711 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 318161007712 active site 318161007713 nucleophile elbow; other site 318161007714 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 318161007715 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 318161007716 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318161007717 NADP binding site [chemical binding]; other site 318161007718 active site 318161007719 putative substrate binding site [chemical binding]; other site 318161007720 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 318161007721 MgtE intracellular N domain; Region: MgtE_N; pfam03448 318161007722 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 318161007723 Divalent cation transporter; Region: MgtE; cl00786 318161007724 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 318161007725 catalytic residues [active] 318161007726 dimer interface [polypeptide binding]; other site 318161007727 PBP superfamily domain; Region: PBP_like_2; cl17296 318161007728 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 318161007729 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 318161007730 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 318161007731 protein binding site [polypeptide binding]; other site 318161007732 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318161007733 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 318161007734 binding surface 318161007735 TPR motif; other site 318161007736 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318161007737 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161007738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161007739 metal binding site [ion binding]; metal-binding site 318161007740 active site 318161007741 I-site; other site 318161007742 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 318161007743 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 318161007744 flap endonuclease-like protein; Provisional; Region: PRK09482 318161007745 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318161007746 active site 318161007747 metal binding site 1 [ion binding]; metal-binding site 318161007748 putative 5' ssDNA interaction site; other site 318161007749 metal binding site 3; metal-binding site 318161007750 metal binding site 2 [ion binding]; metal-binding site 318161007751 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318161007752 putative DNA binding site [nucleotide binding]; other site 318161007753 putative metal binding site [ion binding]; other site 318161007754 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 318161007755 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 318161007756 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161007757 isocitrate dehydrogenase; Provisional; Region: PRK08997 318161007758 tartrate dehydrogenase; Region: TTC; TIGR02089 318161007759 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 318161007760 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 318161007761 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 318161007762 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 318161007763 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 318161007764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161007765 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 318161007766 dimerization interface [polypeptide binding]; other site 318161007767 substrate binding pocket [chemical binding]; other site 318161007768 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 318161007769 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 318161007770 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 318161007771 Ligand Binding Site [chemical binding]; other site 318161007772 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 318161007773 active site residue [active] 318161007774 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 318161007775 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 318161007776 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161007777 ligand binding site [chemical binding]; other site 318161007778 flagellar motor protein PomA; Reviewed; Region: PRK08990 318161007779 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 318161007780 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 318161007781 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 318161007782 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318161007783 substrate binding pocket [chemical binding]; other site 318161007784 chain length determination region; other site 318161007785 substrate-Mg2+ binding site; other site 318161007786 catalytic residues [active] 318161007787 aspartate-rich region 1; other site 318161007788 active site lid residues [active] 318161007789 aspartate-rich region 2; other site 318161007790 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 318161007791 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 318161007792 TPP-binding site; other site 318161007793 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 318161007794 PYR/PP interface [polypeptide binding]; other site 318161007795 dimer interface [polypeptide binding]; other site 318161007796 TPP binding site [chemical binding]; other site 318161007797 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318161007798 heat shock protein GrpE; Provisional; Region: PRK14140 318161007799 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 318161007800 dimer interface [polypeptide binding]; other site 318161007801 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 318161007802 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 318161007803 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 318161007804 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 318161007805 L-lactate permease; Region: Lactate_perm; cl00701 318161007806 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 318161007807 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 318161007808 DEAD-like helicases superfamily; Region: DEXDc; smart00487 318161007809 ATP binding site [chemical binding]; other site 318161007810 Mg++ binding site [ion binding]; other site 318161007811 motif III; other site 318161007812 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 318161007813 nucleotide binding region [chemical binding]; other site 318161007814 ATP-binding site [chemical binding]; other site 318161007815 PAS domain S-box; Region: sensory_box; TIGR00229 318161007816 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 318161007817 putative active site [active] 318161007818 heme pocket [chemical binding]; other site 318161007819 PAS fold; Region: PAS_3; pfam08447 318161007820 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 318161007821 PAS domain S-box; Region: sensory_box; TIGR00229 318161007822 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 318161007823 putative active site [active] 318161007824 heme pocket [chemical binding]; other site 318161007825 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161007826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161007827 metal binding site [ion binding]; metal-binding site 318161007828 active site 318161007829 I-site; other site 318161007830 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 318161007831 putative alcohol dehydrogenase; Provisional; Region: PRK09860 318161007832 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 318161007833 dimer interface [polypeptide binding]; other site 318161007834 active site 318161007835 metal binding site [ion binding]; metal-binding site 318161007836 Protein of unknown function (DUF502); Region: DUF502; pfam04367 318161007837 transcriptional regulator PhoU; Provisional; Region: PRK11115 318161007838 PhoU domain; Region: PhoU; pfam01895 318161007839 PhoU domain; Region: PhoU; pfam01895 318161007840 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 318161007841 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 318161007842 Walker A/P-loop; other site 318161007843 ATP binding site [chemical binding]; other site 318161007844 Q-loop/lid; other site 318161007845 ABC transporter signature motif; other site 318161007846 Walker B; other site 318161007847 D-loop; other site 318161007848 H-loop/switch region; other site 318161007849 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 318161007850 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 318161007851 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161007852 dimer interface [polypeptide binding]; other site 318161007853 conserved gate region; other site 318161007854 putative PBP binding loops; other site 318161007855 ABC-ATPase subunit interface; other site 318161007856 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 318161007857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161007858 conserved gate region; other site 318161007859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161007860 ABC-ATPase subunit interface; other site 318161007861 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 318161007862 ACT domain; Region: ACT_6; pfam13740 318161007863 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318161007864 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 318161007865 Tetratricopeptide repeat; Region: TPR_12; pfam13424 318161007866 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161007867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161007868 metal binding site [ion binding]; metal-binding site 318161007869 active site 318161007870 I-site; other site 318161007871 homoserine O-succinyltransferase; Provisional; Region: PRK05368 318161007872 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 318161007873 proposed active site lysine [active] 318161007874 conserved cys residue [active] 318161007875 outer membrane protein W; Provisional; Region: PRK10959 318161007876 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 318161007877 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 318161007878 maleylacetoacetate isomerase; Region: maiA; TIGR01262 318161007879 C-terminal domain interface [polypeptide binding]; other site 318161007880 GSH binding site (G-site) [chemical binding]; other site 318161007881 putative dimer interface [polypeptide binding]; other site 318161007882 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 318161007883 dimer interface [polypeptide binding]; other site 318161007884 N-terminal domain interface [polypeptide binding]; other site 318161007885 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 318161007886 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 318161007887 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 318161007888 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 318161007889 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 318161007890 putative aromatic amino acid binding site; other site 318161007891 PAS domain; Region: PAS; smart00091 318161007892 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 318161007893 Walker A motif; other site 318161007894 ATP binding site [chemical binding]; other site 318161007895 Walker B motif; other site 318161007896 arginine finger; other site 318161007897 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 318161007898 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 318161007899 aromatic arch; other site 318161007900 DCoH dimer interaction site [polypeptide binding]; other site 318161007901 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 318161007902 DCoH tetramer interaction site [polypeptide binding]; other site 318161007903 substrate binding site [chemical binding]; other site 318161007904 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 318161007905 cofactor binding site; other site 318161007906 metal binding site [ion binding]; metal-binding site 318161007907 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 318161007908 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 318161007909 active site 318161007910 tetramer interface; other site 318161007911 UDP-glucose 4-epimerase; Region: PLN02240 318161007912 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 318161007913 NAD binding site [chemical binding]; other site 318161007914 homodimer interface [polypeptide binding]; other site 318161007915 active site 318161007916 substrate binding site [chemical binding]; other site 318161007917 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 318161007918 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 318161007919 4Fe-4S binding domain; Region: Fer4; cl02805 318161007920 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 318161007921 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 318161007922 putative active site [active] 318161007923 fructokinase; Reviewed; Region: PRK09557 318161007924 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 318161007925 nucleotide binding site [chemical binding]; other site 318161007926 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 318161007927 active site 318161007928 catalytic residues [active] 318161007929 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 318161007930 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 318161007931 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 318161007932 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318161007933 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161007934 putative substrate translocation pore; other site 318161007935 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161007936 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 318161007937 beta-galactosidase; Region: BGL; TIGR03356 318161007938 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 318161007939 putative symporter YagG; Provisional; Region: PRK09669 318161007940 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318161007941 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318161007942 DNA binding site [nucleotide binding] 318161007943 domain linker motif; other site 318161007944 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 318161007945 dimerization interface (closed form) [polypeptide binding]; other site 318161007946 ligand binding site [chemical binding]; other site 318161007947 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318161007948 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161007949 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161007950 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 318161007951 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 318161007952 active site 318161007953 DTW domain; Region: DTW; cl01221 318161007954 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 318161007955 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 318161007956 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 318161007957 TrkA-N domain; Region: TrkA_N; pfam02254 318161007958 TrkA-C domain; Region: TrkA_C; pfam02080 318161007959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161007960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161007961 metal binding site [ion binding]; metal-binding site 318161007962 active site 318161007963 I-site; other site 318161007964 Peptidase M35 domain of peptidyl-Lys metalloendopeptidases; Region: M35_peptidyl-Lys; cd11306 318161007965 active site 318161007966 Zn binding site [ion binding]; other site 318161007967 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161007968 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161007969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161007970 Coenzyme A binding pocket [chemical binding]; other site 318161007971 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 318161007972 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 318161007973 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161007974 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161007975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318161007976 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 318161007977 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 318161007978 Winged helix-turn helix; Region: HTH_29; pfam13551 318161007979 Helix-turn-helix domain; Region: HTH_17; pfam12728 318161007980 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 318161007981 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 318161007982 active site 318161007983 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 318161007984 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161007985 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161007986 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161007987 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161007988 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161007989 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 318161007990 putative NADP binding site [chemical binding]; other site 318161007991 active site 318161007992 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 318161007993 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318161007994 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 318161007995 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 318161007996 active site 318161007997 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 318161007998 active site 318161007999 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 318161008000 active site 2 [active] 318161008001 dimer interface [polypeptide binding]; other site 318161008002 active site 1 [active] 318161008003 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 318161008004 active site 1 [active] 318161008005 dimer interface [polypeptide binding]; other site 318161008006 active site 2 [active] 318161008007 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 318161008008 FMN binding site [chemical binding]; other site 318161008009 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 318161008010 substrate binding site [chemical binding]; other site 318161008011 putative catalytic residue [active] 318161008012 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 318161008013 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 318161008014 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 318161008015 DNA binding residues [nucleotide binding] 318161008016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161008017 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 318161008018 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318161008019 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161008020 HAMP domain; Region: HAMP; pfam00672 318161008021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161008022 dimer interface [polypeptide binding]; other site 318161008023 putative CheW interface [polypeptide binding]; other site 318161008024 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 318161008025 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 318161008026 putative active site [active] 318161008027 Zn binding site [ion binding]; other site 318161008028 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318161008029 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318161008030 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 318161008031 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 318161008032 16S rRNA methyltransferase B; Provisional; Region: PRK10901 318161008033 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 318161008034 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 318161008035 UDP-glucose 4-epimerase; Region: PLN02240 318161008036 NAD binding site [chemical binding]; other site 318161008037 homodimer interface [polypeptide binding]; other site 318161008038 active site 318161008039 substrate binding site [chemical binding]; other site 318161008040 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 318161008041 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 318161008042 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 318161008043 NAD(P) binding site [chemical binding]; other site 318161008044 homodimer interface [polypeptide binding]; other site 318161008045 substrate binding site [chemical binding]; other site 318161008046 active site 318161008047 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 318161008048 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 318161008049 inhibitor-cofactor binding pocket; inhibition site 318161008050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161008051 catalytic residue [active] 318161008052 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 318161008053 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 318161008054 putative trimer interface [polypeptide binding]; other site 318161008055 putative CoA binding site [chemical binding]; other site 318161008056 Bacterial sugar transferase; Region: Bac_transf; pfam02397 318161008057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318161008058 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 318161008059 putative ADP-binding pocket [chemical binding]; other site 318161008060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 318161008061 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 318161008062 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 318161008063 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 318161008064 active site 318161008065 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 318161008066 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 318161008067 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 318161008068 inhibitor-cofactor binding pocket; inhibition site 318161008069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161008070 catalytic residue [active] 318161008071 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 318161008072 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 318161008073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161008074 NAD(P) binding site [chemical binding]; other site 318161008075 active site 318161008076 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 318161008077 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 318161008078 substrate binding site; other site 318161008079 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 318161008080 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 318161008081 inhibitor-cofactor binding pocket; inhibition site 318161008082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161008083 catalytic residue [active] 318161008084 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 318161008085 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 318161008086 putative trimer interface [polypeptide binding]; other site 318161008087 putative active site [active] 318161008088 putative substrate binding site [chemical binding]; other site 318161008089 putative CoA binding site [chemical binding]; other site 318161008090 WxcM-like, C-terminal; Region: FdtA; pfam05523 318161008091 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 318161008092 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 318161008093 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 318161008094 NADP binding site [chemical binding]; other site 318161008095 active site 318161008096 putative substrate binding site [chemical binding]; other site 318161008097 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 318161008098 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 318161008099 substrate binding site; other site 318161008100 tetramer interface; other site 318161008101 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 318161008102 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 318161008103 NAD binding site [chemical binding]; other site 318161008104 substrate binding site [chemical binding]; other site 318161008105 homodimer interface [polypeptide binding]; other site 318161008106 active site 318161008107 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 318161008108 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 318161008109 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 318161008110 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 318161008111 Ligand binding site; other site 318161008112 oligomer interface; other site 318161008113 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 318161008114 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 318161008115 active site 318161008116 catalytic residues [active] 318161008117 metal binding site [ion binding]; metal-binding site 318161008118 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 318161008119 Chain length determinant protein; Region: Wzz; pfam02706 318161008120 hypothetical protein; Reviewed; Region: PRK12275 318161008121 four helix bundle protein; Region: TIGR02436 318161008122 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 318161008123 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 318161008124 SLBB domain; Region: SLBB; pfam10531 318161008125 SLBB domain; Region: SLBB; pfam10531 318161008126 SLBB domain; Region: SLBB; pfam10531 318161008127 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 318161008128 SLBB domain; Region: SLBB; pfam10531 318161008129 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 318161008130 transcriptional activator RfaH; Region: RfaH; TIGR01955 318161008131 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 318161008132 heterodimer interface [polypeptide binding]; other site 318161008133 homodimer interface [polypeptide binding]; other site 318161008134 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 318161008135 hypothetical protein; Validated; Region: PRK00228 318161008136 translation initiation factor Sui1; Validated; Region: PRK06824 318161008137 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 318161008138 putative rRNA binding site [nucleotide binding]; other site 318161008139 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 318161008140 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161008141 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161008142 Ferrochelatase; Region: Ferrochelatase; pfam00762 318161008143 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 318161008144 C-terminal domain interface [polypeptide binding]; other site 318161008145 active site 318161008146 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 318161008147 active site 318161008148 N-terminal domain interface [polypeptide binding]; other site 318161008149 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 318161008150 catalytic residues [active] 318161008151 dimer interface [polypeptide binding]; other site 318161008152 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 318161008153 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 318161008154 Walker A motif; other site 318161008155 ATP binding site [chemical binding]; other site 318161008156 Walker B motif; other site 318161008157 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 318161008158 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 318161008159 Walker A motif; other site 318161008160 ATP binding site [chemical binding]; other site 318161008161 Walker B motif; other site 318161008162 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 318161008163 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318161008164 catalytic residue [active] 318161008165 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 318161008166 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 318161008167 YGGT family; Region: YGGT; pfam02325 318161008168 YGGT family; Region: YGGT; pfam02325 318161008169 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 318161008170 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 318161008171 active site 318161008172 dimerization interface [polypeptide binding]; other site 318161008173 HemN family oxidoreductase; Provisional; Region: PRK05660 318161008174 HemN C-terminal domain; Region: HemN_C; pfam06969 318161008175 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 318161008176 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318161008177 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 318161008178 putative active site [active] 318161008179 heme pocket [chemical binding]; other site 318161008180 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 318161008181 dimer interface [polypeptide binding]; other site 318161008182 phosphorylation site [posttranslational modification] 318161008183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161008184 ATP binding site [chemical binding]; other site 318161008185 Mg2+ binding site [ion binding]; other site 318161008186 G-X-G motif; other site 318161008187 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 318161008188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161008189 active site 318161008190 phosphorylation site [posttranslational modification] 318161008191 intermolecular recognition site; other site 318161008192 dimerization interface [polypeptide binding]; other site 318161008193 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 318161008194 DNA binding site [nucleotide binding] 318161008195 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 318161008196 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 318161008197 trimer interface [polypeptide binding]; other site 318161008198 eyelet of channel; other site 318161008199 recombination associated protein; Reviewed; Region: rdgC; PRK00321 318161008200 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318161008201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161008202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161008203 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 318161008204 putative effector binding pocket; other site 318161008205 dimerization interface [polypeptide binding]; other site 318161008206 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 318161008207 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 318161008208 glutaminase; Provisional; Region: PRK00971 318161008209 hypothetical protein; Provisional; Region: PRK11702 318161008210 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161008211 S-adenosylmethionine binding site [chemical binding]; other site 318161008212 adenine DNA glycosylase; Provisional; Region: PRK10880 318161008213 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 318161008214 minor groove reading motif; other site 318161008215 helix-hairpin-helix signature motif; other site 318161008216 substrate binding pocket [chemical binding]; other site 318161008217 active site 318161008218 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 318161008219 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 318161008220 DNA binding and oxoG recognition site [nucleotide binding] 318161008221 oxidative damage protection protein; Provisional; Region: PRK05408 318161008222 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161008223 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161008224 SapC; Region: SapC; pfam07277 318161008225 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 318161008226 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161008227 putative substrate translocation pore; other site 318161008228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 318161008229 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 318161008230 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 318161008231 active site 318161008232 dimer interface [polypeptide binding]; other site 318161008233 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 318161008234 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 318161008235 dimer interface [polypeptide binding]; other site 318161008236 active site 318161008237 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 318161008238 dimer interface [polypeptide binding]; other site 318161008239 active site 318161008240 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 318161008241 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 318161008242 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 318161008243 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161008244 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 318161008245 ligand-binding site [chemical binding]; other site 318161008246 Transcriptional regulators [Transcription]; Region: PurR; COG1609 318161008247 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 318161008248 DNA binding site [nucleotide binding] 318161008249 domain linker motif; other site 318161008250 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 318161008251 putative dimerization interface [polypeptide binding]; other site 318161008252 putative ligand binding site [chemical binding]; other site 318161008253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 318161008254 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161008255 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 318161008256 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318161008257 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 318161008258 Type II transport protein GspH; Region: GspH; pfam12019 318161008259 Type II transport protein GspH; Region: GspH; pfam12019 318161008260 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 318161008261 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 318161008262 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 318161008263 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 318161008264 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 318161008265 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161008266 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 318161008267 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 318161008268 lipoprotein signal peptidase; Provisional; Region: PRK14787 318161008269 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 318161008270 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 318161008271 active site 318161008272 HIGH motif; other site 318161008273 nucleotide binding site [chemical binding]; other site 318161008274 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318161008275 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 318161008276 active site 318161008277 KMSKS motif; other site 318161008278 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 318161008279 tRNA binding surface [nucleotide binding]; other site 318161008280 anticodon binding site; other site 318161008281 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 318161008282 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 318161008283 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 318161008284 active site 318161008285 Riboflavin kinase; Region: Flavokinase; smart00904 318161008286 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 318161008287 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 318161008288 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 318161008289 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 318161008290 dimerization interface [polypeptide binding]; other site 318161008291 putative DNA binding site [nucleotide binding]; other site 318161008292 putative Zn2+ binding site [ion binding]; other site 318161008293 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 318161008294 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 318161008295 PA/protease or protease-like domain interface [polypeptide binding]; other site 318161008296 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 318161008297 Peptidase family M28; Region: Peptidase_M28; pfam04389 318161008298 metal binding site [ion binding]; metal-binding site 318161008299 hypothetical protein; Validated; Region: PRK02101 318161008300 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318161008301 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 318161008302 putative phosphoketolase; Provisional; Region: PRK05261 318161008303 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 318161008304 TPP-binding site; other site 318161008305 XFP C-terminal domain; Region: XFP_C; pfam09363 318161008306 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318161008307 outer membrane protein A; Reviewed; Region: PRK10808 318161008308 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161008309 ligand binding site [chemical binding]; other site 318161008310 outer membrane protein A; Reviewed; Region: PRK10808 318161008311 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318161008312 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161008313 ligand binding site [chemical binding]; other site 318161008314 transaldolase-like protein; Provisional; Region: PTZ00411 318161008315 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 318161008316 active site 318161008317 dimer interface [polypeptide binding]; other site 318161008318 catalytic residue [active] 318161008319 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 318161008320 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 318161008321 active site 318161008322 dimer interface [polypeptide binding]; other site 318161008323 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 318161008324 dimer interface [polypeptide binding]; other site 318161008325 active site 318161008326 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 318161008327 Hemerythrin-like domain; Region: Hr-like; cd12108 318161008328 Fe binding site [ion binding]; other site 318161008329 threonine synthase; Validated; Region: PRK09225 318161008330 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 318161008331 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161008332 catalytic residue [active] 318161008333 homoserine kinase; Provisional; Region: PRK01212 318161008334 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 318161008335 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 318161008336 putative catalytic residues [active] 318161008337 putative nucleotide binding site [chemical binding]; other site 318161008338 putative aspartate binding site [chemical binding]; other site 318161008339 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 318161008340 dimer interface [polypeptide binding]; other site 318161008341 putative threonine allosteric regulatory site; other site 318161008342 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318161008343 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 318161008344 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 318161008345 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 318161008346 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161008347 Trp repressor protein; Region: Trp_repressor; cl17266 318161008348 Cytochrome C' Region: Cytochrom_C_2; pfam01322 318161008349 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 318161008350 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 318161008351 30S subunit binding site; other site 318161008352 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 318161008353 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 318161008354 Prephenate dehydratase; Region: PDT; pfam00800 318161008355 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 318161008356 putative L-Phe binding site [chemical binding]; other site 318161008357 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 318161008358 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 318161008359 Chorismate mutase type II; Region: CM_2; cl00693 318161008360 prephenate dehydrogenase; Validated; Region: PRK08507 318161008361 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 318161008362 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318161008363 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 318161008364 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 318161008365 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 318161008366 RimM N-terminal domain; Region: RimM; pfam01782 318161008367 PRC-barrel domain; Region: PRC; pfam05239 318161008368 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 318161008369 signal recognition particle protein; Provisional; Region: PRK10867 318161008370 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 318161008371 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 318161008372 P loop; other site 318161008373 GTP binding site [chemical binding]; other site 318161008374 Signal peptide binding domain; Region: SRP_SPB; pfam02978 318161008375 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 318161008376 hypothetical protein; Provisional; Region: PRK11573 318161008377 Domain of unknown function DUF21; Region: DUF21; pfam01595 318161008378 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 318161008379 Transporter associated domain; Region: CorC_HlyC; smart01091 318161008380 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 318161008381 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 318161008382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161008383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161008384 Coenzyme A binding pocket [chemical binding]; other site 318161008385 Protein of unknown function (DUF962); Region: DUF962; cl01879 318161008386 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 318161008387 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 318161008388 active site 318161008389 hydrophilic channel; other site 318161008390 dimerization interface [polypeptide binding]; other site 318161008391 catalytic residues [active] 318161008392 active site lid [active] 318161008393 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 318161008394 Recombination protein O N terminal; Region: RecO_N; pfam11967 318161008395 Recombination protein O C terminal; Region: RecO_C; pfam02565 318161008396 GTPase Era; Reviewed; Region: era; PRK00089 318161008397 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 318161008398 G1 box; other site 318161008399 GTP/Mg2+ binding site [chemical binding]; other site 318161008400 Switch I region; other site 318161008401 G2 box; other site 318161008402 Switch II region; other site 318161008403 G3 box; other site 318161008404 G4 box; other site 318161008405 G5 box; other site 318161008406 KH domain; Region: KH_2; pfam07650 318161008407 ribonuclease III; Reviewed; Region: rnc; PRK00102 318161008408 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 318161008409 dimerization interface [polypeptide binding]; other site 318161008410 active site 318161008411 metal binding site [ion binding]; metal-binding site 318161008412 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 318161008413 dsRNA binding site [nucleotide binding]; other site 318161008414 signal peptidase I; Provisional; Region: PRK10861 318161008415 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 318161008416 Catalytic site [active] 318161008417 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 318161008418 GTP-binding protein LepA; Provisional; Region: PRK05433 318161008419 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 318161008420 G1 box; other site 318161008421 putative GEF interaction site [polypeptide binding]; other site 318161008422 GTP/Mg2+ binding site [chemical binding]; other site 318161008423 Switch I region; other site 318161008424 G2 box; other site 318161008425 G3 box; other site 318161008426 Switch II region; other site 318161008427 G4 box; other site 318161008428 G5 box; other site 318161008429 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 318161008430 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 318161008431 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 318161008432 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 318161008433 anti-sigma E factor; Provisional; Region: rseB; PRK09455 318161008434 MucB/RseB family; Region: MucB_RseB; pfam03888 318161008435 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 318161008436 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 318161008437 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 318161008438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161008439 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 318161008440 DNA binding residues [nucleotide binding] 318161008441 L-aspartate oxidase; Provisional; Region: PRK09077 318161008442 L-aspartate oxidase; Provisional; Region: PRK06175 318161008443 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 318161008444 Uncharacterized conserved protein [Function unknown]; Region: COG2938 318161008445 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 318161008446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161008447 The 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 318161008448 dimerization interface [polypeptide binding]; other site 318161008449 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 318161008450 thymidylate synthase; Reviewed; Region: thyA; PRK01827 318161008451 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 318161008452 dimerization interface [polypeptide binding]; other site 318161008453 active site 318161008454 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 318161008455 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 318161008456 GAF domain; Region: GAF; pfam01590 318161008457 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 318161008458 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 318161008459 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 318161008460 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 318161008461 putative active site [active] 318161008462 Ap4A binding site [chemical binding]; other site 318161008463 nudix motif; other site 318161008464 putative metal binding site [ion binding]; other site 318161008465 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 318161008466 putative DNA-binding cleft [nucleotide binding]; other site 318161008467 putative DNA clevage site; other site 318161008468 molecular lever; other site 318161008469 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 318161008470 cyclase homology domain; Region: CHD; cd07302 318161008471 nucleotidyl binding site; other site 318161008472 metal binding site [ion binding]; metal-binding site 318161008473 dimer interface [polypeptide binding]; other site 318161008474 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 318161008475 ADP-ribose binding site [chemical binding]; other site 318161008476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161008477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161008478 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 318161008479 dimerization interface [polypeptide binding]; other site 318161008480 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 318161008481 putative binding surface; other site 318161008482 active site 318161008483 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 318161008484 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 318161008485 active site 318161008486 dimer interface [polypeptide binding]; other site 318161008487 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 318161008488 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 318161008489 active site 318161008490 FMN binding site [chemical binding]; other site 318161008491 substrate binding site [chemical binding]; other site 318161008492 3Fe-4S cluster binding site [ion binding]; other site 318161008493 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 318161008494 domain interface; other site 318161008495 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 318161008496 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161008497 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161008498 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161008499 S-adenosylmethionine binding site [chemical binding]; other site 318161008500 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 318161008501 dimer interface [polypeptide binding]; other site 318161008502 FMN binding site [chemical binding]; other site 318161008503 Uncharacterized conserved protein [Function unknown]; Region: COG1359 318161008504 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 318161008505 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 318161008506 Acyltransferase family; Region: Acyl_transf_3; pfam01757 318161008507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 318161008508 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 318161008509 Coenzyme A binding pocket [chemical binding]; other site 318161008510 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 318161008511 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161008512 putative substrate translocation pore; other site 318161008513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161008514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161008515 The 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 318161008516 dimerization interface [polypeptide binding]; other site 318161008517 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 318161008518 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 318161008519 CobD/Cbib protein; Region: CobD_Cbib; cl00561 318161008520 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 318161008521 hypothetical protein; Provisional; Region: PRK10578 318161008522 UPF0126 domain; Region: UPF0126; pfam03458 318161008523 UPF0126 domain; Region: UPF0126; pfam03458 318161008524 SnoaL-like domain; Region: SnoaL_2; pfam12680 318161008525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161008526 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161008527 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161008528 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 318161008529 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 318161008530 active site 318161008531 HIGH motif; other site 318161008532 dimer interface [polypeptide binding]; other site 318161008533 KMSKS motif; other site 318161008534 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 318161008535 RNA binding surface [nucleotide binding]; other site 318161008536 putative peptidase; Provisional; Region: PRK11649 318161008537 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161008538 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 318161008539 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 318161008540 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 318161008541 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 318161008542 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 318161008543 Cl- selectivity filter; other site 318161008544 Cl- binding residues [ion binding]; other site 318161008545 pore gating glutamate residue; other site 318161008546 dimer interface [polypeptide binding]; other site 318161008547 aspartate carbamoyltransferase; Provisional; Region: PRK08192 318161008548 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 318161008549 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 318161008550 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 318161008551 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 318161008552 inhibitor-cofactor binding pocket; inhibition site 318161008553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161008554 catalytic residue [active] 318161008555 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 318161008556 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 318161008557 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 318161008558 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 318161008559 Walker A motif; other site 318161008560 ATP binding site [chemical binding]; other site 318161008561 Walker B motif; other site 318161008562 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 318161008563 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 318161008564 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 318161008565 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 318161008566 active site 318161008567 NTP binding site [chemical binding]; other site 318161008568 metal binding triad [ion binding]; metal-binding site 318161008569 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318161008570 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 318161008571 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 318161008572 Methyltransferase domain; Region: Methyltransf_11; pfam08241 318161008573 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 318161008574 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 318161008575 catalytic center binding site [active] 318161008576 ATP binding site [chemical binding]; other site 318161008577 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 318161008578 homooctamer interface [polypeptide binding]; other site 318161008579 active site 318161008580 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 318161008581 UGMP family protein; Validated; Region: PRK09604 318161008582 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 318161008583 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 318161008584 Yqey-like protein; Region: YqeY; pfam09424 318161008585 DNA primase; Validated; Region: dnaG; PRK05667 318161008586 CHC2 zinc finger; Region: zf-CHC2; pfam01807 318161008587 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 318161008588 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 318161008589 active site 318161008590 metal binding site [ion binding]; metal-binding site 318161008591 interdomain interaction site; other site 318161008592 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 318161008593 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 318161008594 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 318161008595 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 318161008596 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318161008597 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 318161008598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161008599 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318161008600 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 318161008601 DNA binding residues [nucleotide binding] 318161008602 NnrS protein; Region: NnrS; pfam05940 318161008603 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 318161008604 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 318161008605 Protein of unknown function (DUF523); Region: DUF523; pfam04463 318161008606 Uncharacterized conserved protein [Function unknown]; Region: COG3272 318161008607 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 318161008608 Domain of unknown function (DUF368); Region: DUF368; pfam04018 318161008609 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 318161008610 CoenzymeA binding site [chemical binding]; other site 318161008611 subunit interaction site [polypeptide binding]; other site 318161008612 PHB binding site; other site 318161008613 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 318161008614 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 318161008615 NodB motif; other site 318161008616 putative active site [active] 318161008617 putative catalytic site [active] 318161008618 putative Zn binding site [ion binding]; other site 318161008619 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 318161008620 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 318161008621 potential catalytic triad [active] 318161008622 conserved cys residue [active] 318161008623 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 318161008624 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 318161008625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161008626 ATP binding site [chemical binding]; other site 318161008627 Mg2+ binding site [ion binding]; other site 318161008628 G-X-G motif; other site 318161008629 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318161008630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161008631 active site 318161008632 phosphorylation site [posttranslational modification] 318161008633 intermolecular recognition site; other site 318161008634 dimerization interface [polypeptide binding]; other site 318161008635 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 318161008636 Walker A motif; other site 318161008637 ATP binding site [chemical binding]; other site 318161008638 Walker B motif; other site 318161008639 arginine finger; other site 318161008640 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161008641 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318161008642 FtsX-like permease family; Region: FtsX; pfam02687 318161008643 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 318161008644 FtsX-like permease family; Region: FtsX; pfam02687 318161008645 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 318161008646 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 318161008647 Walker A/P-loop; other site 318161008648 ATP binding site [chemical binding]; other site 318161008649 Q-loop/lid; other site 318161008650 ABC transporter signature motif; other site 318161008651 Walker B; other site 318161008652 D-loop; other site 318161008653 H-loop/switch region; other site 318161008654 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161008655 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161008656 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 318161008657 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 318161008658 cobalamin binding residues [chemical binding]; other site 318161008659 putative BtuC binding residues; other site 318161008660 dimer interface [polypeptide binding]; other site 318161008661 Isochorismatase family; Region: Isochorismatase; pfam00857 318161008662 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 318161008663 catalytic triad [active] 318161008664 dimer interface [polypeptide binding]; other site 318161008665 conserved cis-peptide bond; other site 318161008666 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 318161008667 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161008668 Coenzyme A binding pocket [chemical binding]; other site 318161008669 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 318161008670 PBP superfamily domain; Region: PBP_like_2; cl17296 318161008671 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161008672 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 318161008673 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 318161008674 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318161008675 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 318161008676 Clp amino terminal domain; Region: Clp_N; pfam02861 318161008677 Clp amino terminal domain; Region: Clp_N; pfam02861 318161008678 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 318161008679 Walker A motif; other site 318161008680 ATP binding site [chemical binding]; other site 318161008681 Walker B motif; other site 318161008682 arginine finger; other site 318161008683 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 318161008684 Walker A motif; other site 318161008685 ATP binding site [chemical binding]; other site 318161008686 Walker B motif; other site 318161008687 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318161008688 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 318161008689 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 318161008690 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 318161008691 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 318161008692 RNA binding surface [nucleotide binding]; other site 318161008693 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161008694 active site 318161008695 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 318161008696 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 318161008697 DNA-binding site [nucleotide binding]; DNA binding site 318161008698 RNA-binding motif; other site 318161008699 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 318161008700 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 318161008701 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 318161008702 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318161008703 HIGH motif; other site 318161008704 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 318161008705 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 318161008706 active site 318161008707 KMSKS motif; other site 318161008708 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 318161008709 tRNA binding surface [nucleotide binding]; other site 318161008710 anticodon binding site; other site 318161008711 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 318161008712 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318161008713 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 318161008714 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 318161008715 calcium binding site 2 [ion binding]; other site 318161008716 active site 318161008717 catalytic triad [active] 318161008718 calcium binding site 1 [ion binding]; other site 318161008719 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 318161008720 Clostridial hydrophobic W; Region: ChW; pfam07538 318161008721 Clostridial hydrophobic, with a conserved W residue, domain; Region: ChW; smart00728 318161008722 Clostridial hydrophobic W; Region: ChW; pfam07538 318161008723 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 318161008724 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 318161008725 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 318161008726 SEC-C motif; Region: SEC-C; pfam02810 318161008727 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161008728 putative substrate translocation pore; other site 318161008729 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161008730 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 318161008731 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 318161008732 active site 318161008733 uracil binding [chemical binding]; other site 318161008734 PII uridylyl-transferase; Provisional; Region: PRK05007 318161008735 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 318161008736 metal binding triad; other site 318161008737 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 318161008738 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161008739 Zn2+ binding site [ion binding]; other site 318161008740 Mg2+ binding site [ion binding]; other site 318161008741 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 318161008742 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 318161008743 YcxB-like protein; Region: YcxB; pfam14317 318161008744 Predicted Fe-S protein [General function prediction only]; Region: COG3313 318161008745 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 318161008746 glycerate dehydrogenase; Provisional; Region: PRK06487 318161008747 putative ligand binding site [chemical binding]; other site 318161008748 putative NAD binding site [chemical binding]; other site 318161008749 catalytic site [active] 318161008750 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 318161008751 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 318161008752 putative metal binding site [ion binding]; other site 318161008753 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 318161008754 HSP70 interaction site [polypeptide binding]; other site 318161008755 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 318161008756 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 318161008757 Substrate binding site; other site 318161008758 metal-binding site 318161008759 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 318161008760 Phosphotransferase enzyme family; Region: APH; pfam01636 318161008761 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 318161008762 OstA-like protein; Region: OstA; cl00844 318161008763 Organic solvent tolerance protein; Region: OstA_C; pfam04453 318161008764 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 318161008765 SurA N-terminal domain; Region: SurA_N; pfam09312 318161008766 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 318161008767 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 318161008768 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 318161008769 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 318161008770 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 318161008771 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 318161008772 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 318161008773 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 318161008774 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 318161008775 active site 318161008776 metal binding site [ion binding]; metal-binding site 318161008777 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161008778 HAMP domain; Region: HAMP; pfam00672 318161008779 dimerization interface [polypeptide binding]; other site 318161008780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161008781 dimer interface [polypeptide binding]; other site 318161008782 putative CheW interface [polypeptide binding]; other site 318161008783 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 318161008784 NADH(P)-binding; Region: NAD_binding_10; pfam13460 318161008785 NAD binding site [chemical binding]; other site 318161008786 substrate binding site [chemical binding]; other site 318161008787 putative active site [active] 318161008788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161008789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161008790 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 318161008791 putative effector binding pocket; other site 318161008792 dimerization interface [polypeptide binding]; other site 318161008793 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 318161008794 ferredoxin-NADP reductase; Provisional; Region: PRK10926 318161008795 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 318161008796 FAD binding pocket [chemical binding]; other site 318161008797 FAD binding motif [chemical binding]; other site 318161008798 phosphate binding motif [ion binding]; other site 318161008799 beta-alpha-beta structure motif; other site 318161008800 NAD binding pocket [chemical binding]; other site 318161008801 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161008802 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 318161008803 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161008804 Walker A/P-loop; other site 318161008805 ATP binding site [chemical binding]; other site 318161008806 Q-loop/lid; other site 318161008807 ABC transporter signature motif; other site 318161008808 Walker B; other site 318161008809 D-loop; other site 318161008810 H-loop/switch region; other site 318161008811 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 318161008812 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 318161008813 TPR repeat; Region: TPR_11; pfam13414 318161008814 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 318161008815 binding surface 318161008816 TPR motif; other site 318161008817 TPR repeat; Region: TPR_11; pfam13414 318161008818 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 318161008819 binding surface 318161008820 TPR motif; other site 318161008821 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 318161008822 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 318161008823 Nitrogen regulatory protein P-II; Region: P-II; smart00938 318161008824 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 318161008825 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 318161008826 generic binding surface II; other site 318161008827 generic binding surface I; other site 318161008828 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 318161008829 putative catalytic site [active] 318161008830 putative metal binding site [ion binding]; other site 318161008831 putative phosphate binding site [ion binding]; other site 318161008832 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 318161008833 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 318161008834 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 318161008835 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 318161008836 Cl binding site [ion binding]; other site 318161008837 oligomer interface [polypeptide binding]; other site 318161008838 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 318161008839 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 318161008840 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 318161008841 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 318161008842 structural tetrad; other site 318161008843 FOG: WD40 repeat [General function prediction only]; Region: COG2319 318161008844 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 318161008845 structural tetrad; other site 318161008846 SlyX; Region: SlyX; pfam04102 318161008847 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 318161008848 active site 318161008849 catalytic residues [active] 318161008850 metal binding site [ion binding]; metal-binding site 318161008851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 318161008852 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 318161008853 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 318161008854 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 318161008855 Zn binding site [ion binding]; other site 318161008856 Protein of unknown function, DUF606; Region: DUF606; pfam04657 318161008857 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161008858 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 318161008859 DNA binding site [nucleotide binding] 318161008860 Uncharacterized conserved protein [Function unknown]; Region: COG1262 318161008861 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 318161008862 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 318161008863 Interdomain contacts; other site 318161008864 Cytokine receptor motif; other site 318161008865 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 318161008866 metal binding site [ion binding]; metal-binding site 318161008867 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 318161008868 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 318161008869 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 318161008870 NADP+ binding site [chemical binding]; other site 318161008871 folate binding site [chemical binding]; other site 318161008872 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 318161008873 Uncharacterized conserved protein [Function unknown]; Region: COG2966 318161008874 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 318161008875 GTPase CgtA; Reviewed; Region: obgE; PRK12298 318161008876 GTP1/OBG; Region: GTP1_OBG; pfam01018 318161008877 Obg GTPase; Region: Obg; cd01898 318161008878 G1 box; other site 318161008879 GTP/Mg2+ binding site [chemical binding]; other site 318161008880 Switch I region; other site 318161008881 G2 box; other site 318161008882 G3 box; other site 318161008883 Switch II region; other site 318161008884 G4 box; other site 318161008885 G5 box; other site 318161008886 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 318161008887 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 318161008888 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 318161008889 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 318161008890 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 318161008891 substrate binding pocket [chemical binding]; other site 318161008892 chain length determination region; other site 318161008893 substrate-Mg2+ binding site; other site 318161008894 catalytic residues [active] 318161008895 aspartate-rich region 1; other site 318161008896 active site lid residues [active] 318161008897 aspartate-rich region 2; other site 318161008898 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 318161008899 ligand binding site [chemical binding]; other site 318161008900 active site 318161008901 UGI interface [polypeptide binding]; other site 318161008902 catalytic site [active] 318161008903 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 318161008904 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 318161008905 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 318161008906 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 318161008907 PAS domain S-box; Region: sensory_box; TIGR00229 318161008908 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 318161008909 putative active site [active] 318161008910 heme pocket [chemical binding]; other site 318161008911 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 318161008912 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 318161008913 Walker A motif; other site 318161008914 ATP binding site [chemical binding]; other site 318161008915 Walker B motif; other site 318161008916 arginine finger; other site 318161008917 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 318161008918 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318161008919 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318161008920 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318161008921 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 318161008922 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 318161008923 acyl-activating enzyme (AAE) consensus motif; other site 318161008924 putative AMP binding site [chemical binding]; other site 318161008925 putative active site [active] 318161008926 putative CoA binding site [chemical binding]; other site 318161008927 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 318161008928 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 318161008929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 318161008930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161008931 Walker A/P-loop; other site 318161008932 ATP binding site [chemical binding]; other site 318161008933 Q-loop/lid; other site 318161008934 ABC transporter signature motif; other site 318161008935 Walker B; other site 318161008936 D-loop; other site 318161008937 H-loop/switch region; other site 318161008938 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 318161008939 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161008940 S-adenosylmethionine binding site [chemical binding]; other site 318161008941 universal stress protein UspE; Provisional; Region: PRK11175 318161008942 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 318161008943 Ligand Binding Site [chemical binding]; other site 318161008944 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 318161008945 Ligand Binding Site [chemical binding]; other site 318161008946 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 318161008947 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 318161008948 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318161008949 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 318161008950 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 318161008951 Soluble P-type ATPase [General function prediction only]; Region: COG4087 318161008952 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 318161008953 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 318161008954 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161008955 Ribosome recycling factor; Region: RRF_GI; pfam12614 318161008956 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 318161008957 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 318161008958 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 318161008959 Phosphotransferase enzyme family; Region: APH; pfam01636 318161008960 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 318161008961 active site 318161008962 ATP binding site [chemical binding]; other site 318161008963 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318161008964 active site 318161008965 ATP binding site [chemical binding]; other site 318161008966 substrate binding site [chemical binding]; other site 318161008967 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 318161008968 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 318161008969 hypothetical protein; Provisional; Region: PRK10039 318161008970 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 318161008971 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 318161008972 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 318161008973 ATP binding site [chemical binding]; other site 318161008974 Mg++ binding site [ion binding]; other site 318161008975 motif III; other site 318161008976 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 318161008977 nucleotide binding region [chemical binding]; other site 318161008978 ATP-binding site [chemical binding]; other site 318161008979 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 318161008980 putative RNA binding site [nucleotide binding]; other site 318161008981 Pirin-related protein [General function prediction only]; Region: COG1741 318161008982 Pirin; Region: Pirin; pfam02678 318161008983 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 318161008984 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 318161008985 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 318161008986 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 318161008987 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 318161008988 ATP binding site [chemical binding]; other site 318161008989 Mg++ binding site [ion binding]; other site 318161008990 motif III; other site 318161008991 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 318161008992 nucleotide binding region [chemical binding]; other site 318161008993 ATP-binding site [chemical binding]; other site 318161008994 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 318161008995 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 318161008996 membrane-bound complex binding site; other site 318161008997 hinge residues; other site 318161008998 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161008999 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 318161009000 dimerization interface [polypeptide binding]; other site 318161009001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161009002 dimer interface [polypeptide binding]; other site 318161009003 putative CheW interface [polypeptide binding]; other site 318161009004 putative global regulator; Reviewed; Region: PRK09559 318161009005 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 318161009006 elongation factor G; Reviewed; Region: PRK00007 318161009007 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 318161009008 G1 box; other site 318161009009 putative GEF interaction site [polypeptide binding]; other site 318161009010 GTP/Mg2+ binding site [chemical binding]; other site 318161009011 Switch I region; other site 318161009012 G2 box; other site 318161009013 G3 box; other site 318161009014 Switch II region; other site 318161009015 G4 box; other site 318161009016 G5 box; other site 318161009017 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 318161009018 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 318161009019 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 318161009020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161009021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161009022 metal binding site [ion binding]; metal-binding site 318161009023 active site 318161009024 I-site; other site 318161009025 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161009026 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161009027 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 318161009028 substrate binding pocket [chemical binding]; other site 318161009029 membrane-bound complex binding site; other site 318161009030 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 318161009031 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 318161009032 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 318161009033 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318161009034 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 318161009035 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 318161009036 carboxyltransferase (CT) interaction site; other site 318161009037 biotinylation site [posttranslational modification]; other site 318161009038 LysR family transcriptional regulator; Provisional; Region: PRK14997 318161009039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161009040 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 318161009041 putative effector binding pocket; other site 318161009042 dimerization interface [polypeptide binding]; other site 318161009043 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 318161009044 putative active site [active] 318161009045 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 318161009046 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 318161009047 Walker A motif; other site 318161009048 ATP binding site [chemical binding]; other site 318161009049 Walker B motif; other site 318161009050 arginine finger; other site 318161009051 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 318161009052 putative substrate binding pocket [chemical binding]; other site 318161009053 AC domain interface; other site 318161009054 catalytic triad [active] 318161009055 AB domain interface; other site 318161009056 interchain disulfide; other site 318161009057 hypothetical protein; Provisional; Region: PRK04860 318161009058 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 318161009059 DNA-specific endonuclease I; Provisional; Region: PRK15137 318161009060 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 318161009061 RNA methyltransferase, RsmE family; Region: TIGR00046 318161009062 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 318161009063 glutathione synthetase; Provisional; Region: PRK05246 318161009064 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 318161009065 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 318161009066 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 318161009067 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 318161009068 dimer interface [polypeptide binding]; other site 318161009069 active site 318161009070 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 318161009071 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 318161009072 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009073 S-adenosylmethionine binding site [chemical binding]; other site 318161009074 Protein of unknown function (DUF342); Region: DUF342; pfam03961 318161009075 protein structure with unknown function; Region: DUF4144; pfam13642 318161009076 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 318161009077 Peptidase family M50; Region: Peptidase_M50; pfam02163 318161009078 active site 318161009079 putative substrate binding region [chemical binding]; other site 318161009080 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161009081 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161009082 aspartate kinase III; Validated; Region: PRK09084 318161009083 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 318161009084 nucleotide binding site [chemical binding]; other site 318161009085 substrate binding site [chemical binding]; other site 318161009086 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 318161009087 lysine allosteric regulatory site; other site 318161009088 dimer interface [polypeptide binding]; other site 318161009089 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 318161009090 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 318161009091 two-component response regulator; Provisional; Region: PRK11173 318161009092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161009093 active site 318161009094 phosphorylation site [posttranslational modification] 318161009095 intermolecular recognition site; other site 318161009096 dimerization interface [polypeptide binding]; other site 318161009097 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 318161009098 DNA binding site [nucleotide binding] 318161009099 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 318161009100 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318161009101 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161009102 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 318161009103 AMP binding site [chemical binding]; other site 318161009104 metal binding site [ion binding]; metal-binding site 318161009105 active site 318161009106 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318161009107 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318161009108 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 318161009109 active site 318161009110 metal binding site [ion binding]; metal-binding site 318161009111 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 318161009112 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 318161009113 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 318161009114 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318161009115 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 318161009116 Walker A motif; other site 318161009117 ATP binding site [chemical binding]; other site 318161009118 Walker B motif; other site 318161009119 arginine finger; other site 318161009120 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 318161009121 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 318161009122 PAAR motif; Region: PAAR_motif; cl15808 318161009123 Phage protein D [General function prediction only]; Region: COG3500 318161009124 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 318161009125 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 318161009126 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 318161009127 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 318161009128 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 318161009129 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 318161009130 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 318161009131 Protein of unknown function (DUF2984); Region: DUF2984; pfam11203 318161009132 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 318161009133 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161009134 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161009135 dimer interface [polypeptide binding]; other site 318161009136 putative CheW interface [polypeptide binding]; other site 318161009137 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 318161009138 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 318161009139 catalytic residue [active] 318161009140 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 318161009141 catalytic residues [active] 318161009142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161009143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161009144 peroxiredoxin; Region: AhpC; TIGR03137 318161009145 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 318161009146 dimer interface [polypeptide binding]; other site 318161009147 decamer (pentamer of dimers) interface [polypeptide binding]; other site 318161009148 catalytic triad [active] 318161009149 peroxidatic and resolving cysteines [active] 318161009150 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 318161009151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161009152 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 318161009153 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009154 S-adenosylmethionine binding site [chemical binding]; other site 318161009155 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 318161009156 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 318161009157 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 318161009158 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 318161009159 active site 318161009160 Zn binding site [ion binding]; other site 318161009161 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318161009162 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 318161009163 Acyl transferase domain; Region: Acyl_transf_1; cl08282 318161009164 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 318161009165 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 318161009166 tetramer interface [polypeptide binding]; other site 318161009167 TPP-binding site [chemical binding]; other site 318161009168 heterodimer interface [polypeptide binding]; other site 318161009169 phosphorylation loop region [posttranslational modification] 318161009170 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 318161009171 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 318161009172 alpha subunit interface [polypeptide binding]; other site 318161009173 TPP binding site [chemical binding]; other site 318161009174 heterodimer interface [polypeptide binding]; other site 318161009175 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 318161009176 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 318161009177 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 318161009178 FAD binding site [chemical binding]; other site 318161009179 substrate binding pocket [chemical binding]; other site 318161009180 catalytic base [active] 318161009181 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161009182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161009183 The 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 318161009184 dimerization interface [polypeptide binding]; other site 318161009185 Transposase; Region: HTH_Tnp_1; pfam01527 318161009186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161009187 putative transposase OrfB; Reviewed; Region: PHA02517 318161009188 HTH-like domain; Region: HTH_21; pfam13276 318161009189 Integrase core domain; Region: rve; pfam00665 318161009190 Integrase core domain; Region: rve_2; pfam13333 318161009191 Uncharacterized conserved protein [Function unknown]; Region: COG3791 318161009192 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 318161009193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161009194 Coenzyme A binding pocket [chemical binding]; other site 318161009195 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 318161009196 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 318161009197 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 318161009198 ATP binding site [chemical binding]; other site 318161009199 Mg++ binding site [ion binding]; other site 318161009200 motif III; other site 318161009201 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 318161009202 nucleotide binding region [chemical binding]; other site 318161009203 ATP-binding site [chemical binding]; other site 318161009204 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 318161009205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161009206 dimer interface [polypeptide binding]; other site 318161009207 conserved gate region; other site 318161009208 putative PBP binding loops; other site 318161009209 ABC-ATPase subunit interface; other site 318161009210 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 318161009211 dimer interface [polypeptide binding]; other site 318161009212 conserved gate region; other site 318161009213 putative PBP binding loops; other site 318161009214 ABC-ATPase subunit interface; other site 318161009215 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 318161009216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161009217 Walker A/P-loop; other site 318161009218 ATP binding site [chemical binding]; other site 318161009219 Q-loop/lid; other site 318161009220 ABC transporter signature motif; other site 318161009221 Walker B; other site 318161009222 D-loop; other site 318161009223 H-loop/switch region; other site 318161009224 TOBE domain; Region: TOBE_2; pfam08402 318161009225 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 318161009226 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 318161009227 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 318161009228 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318161009229 Peptidase C26; Region: Peptidase_C26; pfam07722 318161009230 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 318161009231 catalytic triad [active] 318161009232 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 318161009233 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 318161009234 NAD(P) binding site [chemical binding]; other site 318161009235 catalytic residues [active] 318161009236 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 318161009237 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 318161009238 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 318161009239 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 318161009240 active site 318161009241 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 318161009242 GAF domain; Region: GAF; pfam01590 318161009243 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161009244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161009245 metal binding site [ion binding]; metal-binding site 318161009246 active site 318161009247 I-site; other site 318161009248 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 318161009249 HSP70 interaction site [polypeptide binding]; other site 318161009250 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009251 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 318161009252 Mechanosensitive ion channel; Region: MS_channel; pfam00924 318161009253 phenylalanyl-tRNA synthetase alpha chain; Provisional; Region: PTZ00326 318161009254 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 318161009255 calcium binding site 1 [ion binding]; other site 318161009256 active site 318161009257 catalytic triad [active] 318161009258 calcium binding site 2 [ion binding]; other site 318161009259 calcium binding site 3 [ion binding]; other site 318161009260 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 318161009261 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 318161009262 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 318161009263 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 318161009264 putative ligand binding site [chemical binding]; other site 318161009265 putative NAD binding site [chemical binding]; other site 318161009266 catalytic site [active] 318161009267 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 318161009268 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 318161009269 active site 318161009270 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 318161009271 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 318161009272 putative DNA binding site [nucleotide binding]; other site 318161009273 putative Zn2+ binding site [ion binding]; other site 318161009274 AsnC family; Region: AsnC_trans_reg; pfam01037 318161009275 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 318161009276 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 318161009277 putative active site [active] 318161009278 catalytic triad [active] 318161009279 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 318161009280 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318161009281 PA/protease or protease-like domain interface [polypeptide binding]; other site 318161009282 active site 318161009283 catalytic residues [active] 318161009284 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 318161009285 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 318161009286 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 318161009287 Histidine kinase; Region: HisKA_3; pfam07730 318161009288 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161009289 ATP binding site [chemical binding]; other site 318161009290 Mg2+ binding site [ion binding]; other site 318161009291 G-X-G motif; other site 318161009292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318161009293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161009294 active site 318161009295 phosphorylation site [posttranslational modification] 318161009296 intermolecular recognition site; other site 318161009297 dimerization interface [polypeptide binding]; other site 318161009298 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 318161009299 DNA binding residues [nucleotide binding] 318161009300 dimerization interface [polypeptide binding]; other site 318161009301 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 318161009302 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 318161009303 metal binding site [ion binding]; metal-binding site 318161009304 FMN reductase; Validated; Region: fre; PRK08051 318161009305 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 318161009306 FAD binding pocket [chemical binding]; other site 318161009307 FAD binding motif [chemical binding]; other site 318161009308 phosphate binding motif [ion binding]; other site 318161009309 beta-alpha-beta structure motif; other site 318161009310 NAD binding pocket [chemical binding]; other site 318161009311 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 318161009312 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 318161009313 dimerization interface [polypeptide binding]; other site 318161009314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161009315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161009316 metal binding site [ion binding]; metal-binding site 318161009317 active site 318161009318 I-site; other site 318161009319 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 318161009320 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 318161009321 substrate binding pocket [chemical binding]; other site 318161009322 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 318161009323 membrane-bound complex binding site; other site 318161009324 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 318161009325 ATP binding site [chemical binding]; other site 318161009326 active site 318161009327 substrate binding site [chemical binding]; other site 318161009328 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 318161009329 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 318161009330 N-terminal plug; other site 318161009331 ligand-binding site [chemical binding]; other site 318161009332 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 318161009333 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 318161009334 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 318161009335 dimerization interface [polypeptide binding]; other site 318161009336 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 318161009337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161009338 dimer interface [polypeptide binding]; other site 318161009339 putative CheW interface [polypeptide binding]; other site 318161009340 peptidase PmbA; Provisional; Region: PRK11040 318161009341 hypothetical protein; Provisional; Region: PRK05255 318161009342 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318161009343 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 318161009344 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 318161009345 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 318161009346 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 318161009347 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 318161009348 uridine phosphorylase; Provisional; Region: PRK11178 318161009349 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 318161009350 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 318161009351 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 318161009352 dimer interface [polypeptide binding]; other site 318161009353 active site 318161009354 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 318161009355 catalytic residues [active] 318161009356 substrate binding site [chemical binding]; other site 318161009357 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 318161009358 Radical SAM superfamily; Region: Radical_SAM; pfam04055 318161009359 FeS/SAM binding site; other site 318161009360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161009361 Coenzyme A binding pocket [chemical binding]; other site 318161009362 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161009363 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161009364 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161009365 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 318161009366 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161009367 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 318161009368 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 318161009369 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 318161009370 putative acetyltransferase YhhY; Provisional; Region: PRK10140 318161009371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161009372 Coenzyme A binding pocket [chemical binding]; other site 318161009373 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 318161009374 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 318161009375 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 318161009376 CoenzymeA binding site [chemical binding]; other site 318161009377 subunit interaction site [polypeptide binding]; other site 318161009378 PHB binding site; other site 318161009379 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318161009380 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 318161009381 catalytic triad [active] 318161009382 putative active site [active] 318161009383 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 318161009384 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 318161009385 FOG: PKD repeat [General function prediction only]; Region: COG3291 318161009386 Curlin associated repeat; Region: Curlin_rpt; pfam07012 318161009387 Curlin associated repeat; Region: Curlin_rpt; pfam07012 318161009388 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318161009389 Curlin associated repeat; Region: Curlin_rpt; pfam07012 318161009390 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318161009391 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 318161009392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318161009393 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 318161009394 DNA binding residues [nucleotide binding] 318161009395 dimerization interface [polypeptide binding]; other site 318161009396 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 318161009397 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 318161009398 ligand binding site [chemical binding]; other site 318161009399 NAD binding site [chemical binding]; other site 318161009400 tetramer interface [polypeptide binding]; other site 318161009401 catalytic site [active] 318161009402 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 318161009403 L-serine binding site [chemical binding]; other site 318161009404 ACT domain interface; other site 318161009405 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 318161009406 Transglycosylase; Region: Transgly; cl17702 318161009407 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 318161009408 Cache domain; Region: Cache_1; pfam02743 318161009409 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161009410 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 318161009411 dimerization interface [polypeptide binding]; other site 318161009412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161009413 dimer interface [polypeptide binding]; other site 318161009414 putative CheW interface [polypeptide binding]; other site 318161009415 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318161009416 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 318161009417 active site 318161009418 nucleophile elbow; other site 318161009419 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 318161009420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161009421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161009422 metal binding site [ion binding]; metal-binding site 318161009423 active site 318161009424 I-site; other site 318161009425 AAA domain; Region: AAA_32; pfam13654 318161009426 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 318161009427 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 318161009428 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161009429 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009430 S-adenosylmethionine binding site [chemical binding]; other site 318161009431 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161009432 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009433 S-adenosylmethionine binding site [chemical binding]; other site 318161009434 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318161009435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161009436 NAD(P) binding site [chemical binding]; other site 318161009437 active site 318161009438 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318161009439 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161009440 AMP binding site [chemical binding]; other site 318161009441 active site 318161009442 acyl-activating enzyme (AAE) consensus motif; other site 318161009443 CoA binding site [chemical binding]; other site 318161009444 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318161009445 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 318161009446 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 318161009447 classical (c) SDRs; Region: SDR_c; cd05233 318161009448 NAD(P) binding site [chemical binding]; other site 318161009449 active site 318161009450 Phosphopantetheine attachment site; Region: PP-binding; cl09936 318161009451 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 318161009452 ligand binding site; other site 318161009453 pseudaminic acid synthase; Region: PseI; TIGR03586 318161009454 NeuB family; Region: NeuB; pfam03102 318161009455 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 318161009456 NeuB binding interface [polypeptide binding]; other site 318161009457 putative substrate binding site [chemical binding]; other site 318161009458 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 318161009459 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 318161009460 [2Fe-2S] cluster binding site [ion binding]; other site 318161009461 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 318161009462 alpha subunit interface [polypeptide binding]; other site 318161009463 active site 318161009464 substrate binding site [chemical binding]; other site 318161009465 Fe binding site [ion binding]; other site 318161009466 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 318161009467 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 318161009468 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161009469 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161009470 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 318161009471 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 318161009472 classical (c) SDRs; Region: SDR_c; cd05233 318161009473 NAD(P) binding site [chemical binding]; other site 318161009474 active site 318161009475 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 318161009476 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 318161009477 dimer interface [polypeptide binding]; other site 318161009478 active site 318161009479 CoA binding pocket [chemical binding]; other site 318161009480 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 318161009481 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 318161009482 dimer interface [polypeptide binding]; other site 318161009483 active site 318161009484 CoA binding pocket [chemical binding]; other site 318161009485 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 318161009486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 318161009487 Uncharacterized conserved protein [Function unknown]; Region: COG0397 318161009488 hypothetical protein; Validated; Region: PRK00029 318161009489 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 318161009490 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 318161009491 N-terminal plug; other site 318161009492 ligand-binding site [chemical binding]; other site 318161009493 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 318161009494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 318161009495 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 318161009496 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 318161009497 dimer interface [polypeptide binding]; other site 318161009498 putative anticodon binding site; other site 318161009499 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 318161009500 motif 1; other site 318161009501 active site 318161009502 motif 2; other site 318161009503 motif 3; other site 318161009504 peptide chain release factor 2; Validated; Region: prfB; PRK00578 318161009505 This domain is found in peptide chain release factors; Region: PCRF; smart00937 318161009506 RF-1 domain; Region: RF-1; pfam00472 318161009507 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 318161009508 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 318161009509 active site 318161009510 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 318161009511 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 318161009512 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 318161009513 Walker A motif; other site 318161009514 ATP binding site [chemical binding]; other site 318161009515 Walker B motif; other site 318161009516 arginine finger; other site 318161009517 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161009518 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 318161009519 catalytic residue [active] 318161009520 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 318161009521 Killing trait; Region: RebB; pfam11747 318161009522 Killing trait; Region: RebB; pfam11747 318161009523 Killing trait; Region: RebB; pfam11747 318161009524 Killing trait; Region: RebB; pfam11747 318161009525 Killing trait; Region: RebB; pfam11747 318161009526 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 318161009527 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 318161009528 Walker A motif; other site 318161009529 ATP binding site [chemical binding]; other site 318161009530 Walker B motif; other site 318161009531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161009532 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 318161009533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 318161009534 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 318161009535 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 318161009536 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 318161009537 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 318161009538 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 318161009539 putative RNA binding site [nucleotide binding]; other site 318161009540 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009541 S-adenosylmethionine binding site [chemical binding]; other site 318161009542 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 318161009543 FAD binding domain; Region: FAD_binding_4; pfam01565 318161009544 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161009545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161009546 The 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 318161009547 dimerization interface [polypeptide binding]; other site 318161009548 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 318161009549 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 318161009550 Chromate transporter; Region: Chromate_transp; pfam02417 318161009551 Transcriptional regulators [Transcription]; Region: MarR; COG1846 318161009552 MarR family; Region: MarR; pfam01047 318161009553 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 318161009554 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 318161009555 Transglycosylase; Region: Transgly; pfam00912 318161009556 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 318161009557 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 318161009558 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 318161009559 ATP binding site [chemical binding]; other site 318161009560 putative Mg++ binding site [ion binding]; other site 318161009561 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 318161009562 nucleotide binding region [chemical binding]; other site 318161009563 ATP-binding site [chemical binding]; other site 318161009564 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 318161009565 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 318161009566 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161009567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161009568 metal binding site [ion binding]; metal-binding site 318161009569 active site 318161009570 I-site; other site 318161009571 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 318161009572 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 318161009573 aminopeptidase B; Provisional; Region: PRK05015 318161009574 Peptidase; Region: DUF3663; pfam12404 318161009575 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 318161009576 interface (dimer of trimers) [polypeptide binding]; other site 318161009577 Substrate-binding/catalytic site; other site 318161009578 Zn-binding sites [ion binding]; other site 318161009579 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 318161009580 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 318161009581 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 318161009582 active site 318161009583 HIGH motif; other site 318161009584 nucleotide binding site [chemical binding]; other site 318161009585 active site 318161009586 KMSKS motif; other site 318161009587 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 318161009588 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 318161009589 active site 318161009590 NTP binding site [chemical binding]; other site 318161009591 metal binding triad [ion binding]; metal-binding site 318161009592 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 318161009593 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 318161009594 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 318161009595 catalytic center binding site [active] 318161009596 ATP binding site [chemical binding]; other site 318161009597 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 318161009598 oligomerization interface [polypeptide binding]; other site 318161009599 active site 318161009600 metal binding site [ion binding]; metal-binding site 318161009601 Pantoate-beta-alanine ligase; Region: PanC; cd00560 318161009602 pantoate--beta-alanine ligase; Region: panC; TIGR00018 318161009603 active site 318161009604 ATP-binding site [chemical binding]; other site 318161009605 pantoate-binding site; other site 318161009606 HXXH motif; other site 318161009607 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318161009608 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 318161009609 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 318161009610 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161009611 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161009612 ABC transporter; Region: ABC_tran_2; pfam12848 318161009613 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 318161009614 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 318161009615 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 318161009616 nucleotide binding site/active site [active] 318161009617 HIT family signature motif; other site 318161009618 catalytic residue [active] 318161009619 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 318161009620 MarR family; Region: MarR_2; cl17246 318161009621 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 318161009622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161009623 putative substrate translocation pore; other site 318161009624 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 318161009625 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 318161009626 active site 318161009627 catalytic tetrad [active] 318161009628 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 318161009629 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 318161009630 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 318161009631 putative hydrolase; Provisional; Region: PRK10985 318161009632 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 318161009633 phosphoribulokinase; Provisional; Region: PRK15453 318161009634 active site 318161009635 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 318161009636 Sel1-like repeats; Region: SEL1; smart00671 318161009637 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 318161009638 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 318161009639 ligand binding site [chemical binding]; other site 318161009640 flexible hinge region; other site 318161009641 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 318161009642 putative switch regulator; other site 318161009643 non-specific DNA interactions [nucleotide binding]; other site 318161009644 DNA binding site [nucleotide binding] 318161009645 sequence specific DNA binding site [nucleotide binding]; other site 318161009646 putative cAMP binding site [chemical binding]; other site 318161009647 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 318161009648 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 318161009649 NAD(P) binding site [chemical binding]; other site 318161009650 catalytic residues [active] 318161009651 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 318161009652 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 318161009653 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 318161009654 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 318161009655 inhibitor-cofactor binding pocket; inhibition site 318161009656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161009657 catalytic residue [active] 318161009658 HDOD domain; Region: HDOD; pfam08668 318161009659 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 318161009660 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 318161009661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161009662 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 318161009663 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 318161009664 glutamine binding [chemical binding]; other site 318161009665 catalytic triad [active] 318161009666 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 318161009667 stringent starvation protein A; Provisional; Region: sspA; PRK09481 318161009668 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 318161009669 C-terminal domain interface [polypeptide binding]; other site 318161009670 putative GSH binding site (G-site) [chemical binding]; other site 318161009671 dimer interface [polypeptide binding]; other site 318161009672 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 318161009673 dimer interface [polypeptide binding]; other site 318161009674 N-terminal domain interface [polypeptide binding]; other site 318161009675 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 318161009676 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 318161009677 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 318161009678 Qi binding site; other site 318161009679 intrachain domain interface; other site 318161009680 interchain domain interface [polypeptide binding]; other site 318161009681 heme bH binding site [chemical binding]; other site 318161009682 heme bL binding site [chemical binding]; other site 318161009683 Qo binding site; other site 318161009684 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 318161009685 interchain domain interface [polypeptide binding]; other site 318161009686 intrachain domain interface; other site 318161009687 Qi binding site; other site 318161009688 Qo binding site; other site 318161009689 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 318161009690 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 318161009691 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 318161009692 [2Fe-2S] cluster binding site [ion binding]; other site 318161009693 FtsH protease regulator HflC; Provisional; Region: PRK11029 318161009694 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 318161009695 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 318161009696 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 318161009697 HflK protein; Region: hflK; TIGR01933 318161009698 GTPase HflX; Provisional; Region: PRK11058 318161009699 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 318161009700 HflX GTPase family; Region: HflX; cd01878 318161009701 G1 box; other site 318161009702 GTP/Mg2+ binding site [chemical binding]; other site 318161009703 Switch I region; other site 318161009704 G2 box; other site 318161009705 G3 box; other site 318161009706 Switch II region; other site 318161009707 G4 box; other site 318161009708 G5 box; other site 318161009709 bacterial Hfq-like; Region: Hfq; cd01716 318161009710 hexamer interface [polypeptide binding]; other site 318161009711 Sm1 motif; other site 318161009712 RNA binding site [nucleotide binding]; other site 318161009713 Sm2 motif; other site 318161009714 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 318161009715 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 318161009716 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 318161009717 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161009718 ATP binding site [chemical binding]; other site 318161009719 Mg2+ binding site [ion binding]; other site 318161009720 G-X-G motif; other site 318161009721 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 318161009722 ATP binding site [chemical binding]; other site 318161009723 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 318161009724 AMIN domain; Region: AMIN; pfam11741 318161009725 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 318161009726 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 318161009727 active site 318161009728 metal binding site [ion binding]; metal-binding site 318161009729 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 318161009730 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161009731 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 318161009732 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 318161009733 catalytic site [active] 318161009734 putative active site [active] 318161009735 putative substrate binding site [chemical binding]; other site 318161009736 dimer interface [polypeptide binding]; other site 318161009737 GTPase RsgA; Reviewed; Region: PRK12288 318161009738 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 318161009739 RNA binding site [nucleotide binding]; other site 318161009740 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 318161009741 GTPase/Zn-binding domain interface [polypeptide binding]; other site 318161009742 GTP/Mg2+ binding site [chemical binding]; other site 318161009743 G4 box; other site 318161009744 G5 box; other site 318161009745 G1 box; other site 318161009746 Switch I region; other site 318161009747 G2 box; other site 318161009748 G3 box; other site 318161009749 Switch II region; other site 318161009750 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 318161009751 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 318161009752 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 318161009753 active site 318161009754 catalytic site [active] 318161009755 metal binding site [ion binding]; metal-binding site 318161009756 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 318161009757 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 318161009758 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 318161009759 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 318161009760 CAP-like domain; other site 318161009761 active site 318161009762 primary dimer interface [polypeptide binding]; other site 318161009763 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 318161009764 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 318161009765 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161009766 ATP binding site [chemical binding]; other site 318161009767 Mg2+ binding site [ion binding]; other site 318161009768 G-X-G motif; other site 318161009769 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 318161009770 anchoring element; other site 318161009771 dimer interface [polypeptide binding]; other site 318161009772 ATP binding site [chemical binding]; other site 318161009773 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 318161009774 active site 318161009775 metal binding site [ion binding]; metal-binding site 318161009776 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 318161009777 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 318161009778 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 318161009779 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 318161009780 active site 318161009781 metal binding site [ion binding]; metal-binding site 318161009782 hexamer interface [polypeptide binding]; other site 318161009783 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 318161009784 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 318161009785 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 318161009786 dimer interface [polypeptide binding]; other site 318161009787 ADP-ribose binding site [chemical binding]; other site 318161009788 active site 318161009789 nudix motif; other site 318161009790 metal binding site [ion binding]; metal-binding site 318161009791 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 318161009792 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 318161009793 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 318161009794 Protein of unknown function (DUF461); Region: DUF461; pfam04314 318161009795 enoyl-CoA hydratase; Provisional; Region: PRK06688 318161009796 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 318161009797 substrate binding site [chemical binding]; other site 318161009798 oxyanion hole (OAH) forming residues; other site 318161009799 trimer interface [polypeptide binding]; other site 318161009800 PspC domain; Region: PspC; cl00864 318161009801 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 318161009802 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 318161009803 FMN binding site [chemical binding]; other site 318161009804 active site 318161009805 catalytic residues [active] 318161009806 substrate binding site [chemical binding]; other site 318161009807 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 318161009808 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 318161009809 active site 318161009810 DNA binding site [nucleotide binding] 318161009811 Int/Topo IB signature motif; other site 318161009812 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 318161009813 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 318161009814 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 318161009815 active site 318161009816 DNA binding site [nucleotide binding] 318161009817 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 318161009818 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 318161009819 Catalytic site [active] 318161009820 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 318161009821 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 318161009822 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 318161009823 oligomer interface [polypeptide binding]; other site 318161009824 active site residues [active] 318161009825 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 318161009826 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 318161009827 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 318161009828 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 318161009829 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 318161009830 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 318161009831 catalytic residues [active] 318161009832 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 318161009833 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161009834 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 318161009835 non-specific DNA binding site [nucleotide binding]; other site 318161009836 salt bridge; other site 318161009837 sequence-specific DNA binding site [nucleotide binding]; other site 318161009838 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 318161009839 active site 318161009840 DNA binding site [nucleotide binding] 318161009841 Int/Topo IB signature motif; other site 318161009842 Replication protein P; Region: Phage_lambda_P; pfam06992 318161009843 Helix-turn-helix domain; Region: HTH_36; pfam13730 318161009844 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 318161009845 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 318161009846 non-specific DNA binding site [nucleotide binding]; other site 318161009847 Predicted transcriptional regulator [Transcription]; Region: COG2932 318161009848 salt bridge; other site 318161009849 sequence-specific DNA binding site [nucleotide binding]; other site 318161009850 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 318161009851 Catalytic site [active] 318161009852 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 318161009853 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009854 S-adenosylmethionine binding site [chemical binding]; other site 318161009855 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318161009856 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 318161009857 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 318161009858 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 318161009859 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 318161009860 Zn binding site [ion binding]; other site 318161009861 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 318161009862 YniB-like protein; Region: YniB; pfam14002 318161009863 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 318161009864 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 318161009865 hypothetical protein; Provisional; Region: PRK09256 318161009866 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 318161009867 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 318161009868 Dehydroquinase class II; Region: DHquinase_II; pfam01220 318161009869 active site 318161009870 trimer interface [polypeptide binding]; other site 318161009871 dimer interface [polypeptide binding]; other site 318161009872 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 318161009873 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 318161009874 putative RNA binding site [nucleotide binding]; other site 318161009875 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161009876 S-adenosylmethionine binding site [chemical binding]; other site 318161009877 PhoD-like phosphatase; Region: PhoD; pfam09423 318161009878 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 318161009879 putative active site [active] 318161009880 putative metal binding site [ion binding]; other site 318161009881 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 318161009882 FOG: CBS domain [General function prediction only]; Region: COG0517 318161009883 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 318161009884 Lamin Tail Domain; Region: LTD; pfam00932 318161009885 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 318161009886 Endonuclease I; Region: Endonuclease_1; pfam04231 318161009887 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 318161009888 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 318161009889 active site 318161009890 catalytic residues [active] 318161009891 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 318161009892 PA/protease or protease-like domain interface [polypeptide binding]; other site 318161009893 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318161009894 catalytic residues [active] 318161009895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 318161009896 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 318161009897 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 318161009898 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 318161009899 Beta-Casp domain; Region: Beta-Casp; smart01027 318161009900 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 318161009901 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161009902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161009903 active site 318161009904 phosphorylation site [posttranslational modification] 318161009905 intermolecular recognition site; other site 318161009906 dimerization interface [polypeptide binding]; other site 318161009907 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 318161009908 anti sigma factor interaction site; other site 318161009909 regulatory phosphorylation site [posttranslational modification]; other site 318161009910 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 318161009911 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 318161009912 putative binding surface; other site 318161009913 active site 318161009914 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 318161009915 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161009916 ATP binding site [chemical binding]; other site 318161009917 Mg2+ binding site [ion binding]; other site 318161009918 G-X-G motif; other site 318161009919 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 318161009920 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 318161009921 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161009922 HAMP domain; Region: HAMP; pfam00672 318161009923 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161009924 dimer interface [polypeptide binding]; other site 318161009925 putative CheW interface [polypeptide binding]; other site 318161009926 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 318161009927 putative CheA interaction surface; other site 318161009928 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 318161009929 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 318161009930 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 318161009931 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13498 318161009932 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 318161009933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161009934 active site 318161009935 phosphorylation site [posttranslational modification] 318161009936 intermolecular recognition site; other site 318161009937 dimerization interface [polypeptide binding]; other site 318161009938 CheB methylesterase; Region: CheB_methylest; pfam01339 318161009939 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 318161009940 substrate binding site [chemical binding]; other site 318161009941 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 318161009942 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161009943 putative substrate translocation pore; other site 318161009944 POT family; Region: PTR2; cl17359 318161009945 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 318161009946 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 318161009947 DNA binding site [nucleotide binding] 318161009948 TPR repeat; Region: TPR_11; pfam13414 318161009949 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 318161009950 binding surface 318161009951 TPR motif; other site 318161009952 TPR repeat; Region: TPR_11; pfam13414 318161009953 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 318161009954 binding surface 318161009955 TPR motif; other site 318161009956 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 318161009957 TPR motif; other site 318161009958 binding surface 318161009959 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 318161009960 active site 318161009961 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 318161009962 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318161009963 active site 318161009964 Zn binding site [ion binding]; other site 318161009965 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 318161009966 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 318161009967 substrate binding pocket [chemical binding]; other site 318161009968 membrane-bound complex binding site; other site 318161009969 hinge residues; other site 318161009970 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 318161009971 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 318161009972 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 318161009973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161009974 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161009975 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161009976 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 318161009977 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 318161009978 dimer interface [polypeptide binding]; other site 318161009979 ssDNA binding site [nucleotide binding]; other site 318161009980 tetramer (dimer of dimers) interface [polypeptide binding]; other site 318161009981 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161009982 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161009983 putative substrate translocation pore; other site 318161009984 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 318161009985 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 318161009986 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 318161009987 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 318161009988 M28 Zn-Peptidases; Region: M28_like_2; cd05662 318161009989 Peptidase family M28; Region: Peptidase_M28; pfam04389 318161009990 metal binding site [ion binding]; metal-binding site 318161009991 helicase 45; Provisional; Region: PTZ00424 318161009992 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 318161009993 ATP binding site [chemical binding]; other site 318161009994 Mg++ binding site [ion binding]; other site 318161009995 motif III; other site 318161009996 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 318161009997 nucleotide binding region [chemical binding]; other site 318161009998 ATP-binding site [chemical binding]; other site 318161009999 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 318161010000 putative RNA binding site [nucleotide binding]; other site 318161010001 Family description; Region: VCBS; pfam13517 318161010002 Family description; Region: VCBS; pfam13517 318161010003 Family description; Region: VCBS; pfam13517 318161010004 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 318161010005 DNA binding site [nucleotide binding] 318161010006 FOG: WD40 repeat [General function prediction only]; Region: COG2319 318161010007 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 318161010008 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 318161010009 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161010010 protease TldD; Provisional; Region: tldD; PRK10735 318161010011 nitrilase; Region: PLN02798 318161010012 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 318161010013 putative active site [active] 318161010014 catalytic triad [active] 318161010015 dimer interface [polypeptide binding]; other site 318161010016 TIGR02099 family protein; Region: TIGR02099 318161010017 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 318161010018 ribonuclease G; Provisional; Region: PRK11712 318161010019 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 318161010020 homodimer interface [polypeptide binding]; other site 318161010021 oligonucleotide binding site [chemical binding]; other site 318161010022 Maf-like protein; Region: Maf; pfam02545 318161010023 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 318161010024 active site 318161010025 dimer interface [polypeptide binding]; other site 318161010026 rod shape-determining protein MreD; Region: MreD; cl01087 318161010027 rod shape-determining protein MreC; Provisional; Region: PRK13922 318161010028 rod shape-determining protein MreC; Region: MreC; pfam04085 318161010029 rod shape-determining protein MreB; Provisional; Region: PRK13927 318161010030 MreB and similar proteins; Region: MreB_like; cd10225 318161010031 nucleotide binding site [chemical binding]; other site 318161010032 Mg binding site [ion binding]; other site 318161010033 putative protofilament interaction site [polypeptide binding]; other site 318161010034 RodZ interaction site [polypeptide binding]; other site 318161010035 H-type lectin domain; Region: H_lectin; pfam09458 318161010036 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 318161010037 putative metal binding site [ion binding]; other site 318161010038 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 318161010039 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318161010040 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 318161010041 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 318161010042 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 318161010043 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318161010044 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318161010045 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318161010046 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 318161010047 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 318161010048 Walker A motif; other site 318161010049 ATP binding site [chemical binding]; other site 318161010050 Walker B motif; other site 318161010051 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 318161010052 binding surface 318161010053 Tetratricopeptide repeat; Region: TPR_16; pfam13432 318161010054 TPR motif; other site 318161010055 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 318161010056 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 318161010057 Walker A motif; other site 318161010058 ATP binding site [chemical binding]; other site 318161010059 Walker B motif; other site 318161010060 arginine finger; other site 318161010061 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 318161010062 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 318161010063 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 318161010064 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 318161010065 regulatory protein CsrD; Provisional; Region: PRK11059 318161010066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161010067 I-site; other site 318161010068 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 318161010069 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 318161010070 Malic enzyme, N-terminal domain; Region: malic; pfam00390 318161010071 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 318161010072 putative NAD(P) binding site [chemical binding]; other site 318161010073 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 318161010074 FimV N-terminal domain; Region: FimV_core; TIGR03505 318161010075 primosome assembly protein PriA; Validated; Region: PRK05580 318161010076 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 318161010077 ATP binding site [chemical binding]; other site 318161010078 putative Mg++ binding site [ion binding]; other site 318161010079 helicase superfamily c-terminal domain; Region: HELICc; smart00490 318161010080 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 318161010081 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 318161010082 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 318161010083 active site 318161010084 HIGH motif; other site 318161010085 KMSK motif region; other site 318161010086 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 318161010087 tRNA binding surface [nucleotide binding]; other site 318161010088 anticodon binding site; other site 318161010089 Sporulation related domain; Region: SPOR; cl10051 318161010090 Sporulation related domain; Region: SPOR; pfam05036 318161010091 Divergent AAA domain; Region: AAA_4; pfam04326 318161010092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161010093 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161010094 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161010095 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 318161010096 active site 318161010097 HslU subunit interaction site [polypeptide binding]; other site 318161010098 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 318161010099 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 318161010100 Walker A motif; other site 318161010101 ATP binding site [chemical binding]; other site 318161010102 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 318161010103 Walker B motif; other site 318161010104 arginine finger; other site 318161010105 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 318161010106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 318161010107 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 318161010108 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 318161010109 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 318161010110 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 318161010111 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161010112 S-adenosylmethionine binding site [chemical binding]; other site 318161010113 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 318161010114 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 318161010115 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318161010116 short chain dehydrogenase; Provisional; Region: PRK06101 318161010117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 318161010118 NAD(P) binding site [chemical binding]; other site 318161010119 active site 318161010120 SnoaL-like domain; Region: SnoaL_2; pfam12680 318161010121 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 318161010122 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 318161010123 RNA polymerase sigma factor; Provisional; Region: PRK12526 318161010124 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161010125 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 318161010126 PAS domain S-box; Region: sensory_box; TIGR00229 318161010127 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 318161010128 putative active site [active] 318161010129 heme pocket [chemical binding]; other site 318161010130 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 318161010131 GAF domain; Region: GAF_2; pfam13185 318161010132 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161010133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161010134 metal binding site [ion binding]; metal-binding site 318161010135 active site 318161010136 I-site; other site 318161010137 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 318161010138 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 318161010139 substrate binding site [chemical binding]; other site 318161010140 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 318161010141 substrate binding site [chemical binding]; other site 318161010142 ligand binding site [chemical binding]; other site 318161010143 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 318161010144 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 318161010145 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 318161010146 motif II; other site 318161010147 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 318161010148 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 318161010149 active site 318161010150 nucleophile elbow; other site 318161010151 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 318161010152 Surface antigen; Region: Bac_surface_Ag; pfam01103 318161010153 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 318161010154 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 318161010155 putative active site [active] 318161010156 heme pocket [chemical binding]; other site 318161010157 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 318161010158 PAS domain; Region: PAS_9; pfam13426 318161010159 putative active site [active] 318161010160 heme pocket [chemical binding]; other site 318161010161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161010162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161010163 metal binding site [ion binding]; metal-binding site 318161010164 active site 318161010165 I-site; other site 318161010166 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 318161010167 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 318161010168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 318161010169 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161010170 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318161010171 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 318161010172 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 318161010173 E3 interaction surface; other site 318161010174 lipoyl attachment site [posttranslational modification]; other site 318161010175 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 318161010176 E3 interaction surface; other site 318161010177 lipoyl attachment site [posttranslational modification]; other site 318161010178 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 318161010179 E3 interaction surface; other site 318161010180 lipoyl attachment site [posttranslational modification]; other site 318161010181 e3 binding domain; Region: E3_binding; pfam02817 318161010182 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 318161010183 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 318161010184 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 318161010185 dimer interface [polypeptide binding]; other site 318161010186 TPP-binding site [chemical binding]; other site 318161010187 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 318161010188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 318161010189 DNA-binding site [nucleotide binding]; DNA binding site 318161010190 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 318161010191 regulatory protein AmpE; Provisional; Region: PRK10987 318161010192 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 318161010193 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 318161010194 amidase catalytic site [active] 318161010195 Zn binding residues [ion binding]; other site 318161010196 substrate binding site [chemical binding]; other site 318161010197 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 318161010198 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 318161010199 dimerization interface [polypeptide binding]; other site 318161010200 active site 318161010201 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 318161010202 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 318161010203 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 318161010204 Walker A motif; other site 318161010205 ATP binding site [chemical binding]; other site 318161010206 Walker B motif; other site 318161010207 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 318161010208 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318161010209 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 318161010210 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 318161010211 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 318161010212 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 318161010213 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 318161010214 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 318161010215 CoA-binding site [chemical binding]; other site 318161010216 ATP-binding [chemical binding]; other site 318161010217 hypothetical protein; Provisional; Region: PRK05287 318161010218 Domain of unknown function (DUF329); Region: DUF329; pfam03884 318161010219 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 318161010220 active site 318161010221 8-oxo-dGMP binding site [chemical binding]; other site 318161010222 nudix motif; other site 318161010223 metal binding site [ion binding]; metal-binding site 318161010224 CHASE4 domain; Region: CHASE4; pfam05228 318161010225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161010226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161010227 metal binding site [ion binding]; metal-binding site 318161010228 active site 318161010229 I-site; other site 318161010230 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 318161010231 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 318161010232 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 318161010233 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 318161010234 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161010235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161010236 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161010237 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 318161010238 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 318161010239 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 318161010240 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 318161010241 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 318161010242 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 318161010243 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 318161010244 purine monophosphate binding site [chemical binding]; other site 318161010245 dimer interface [polypeptide binding]; other site 318161010246 putative catalytic residues [active] 318161010247 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 318161010248 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 318161010249 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 318161010250 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 318161010251 DNA binding residues [nucleotide binding] 318161010252 dimer interface [polypeptide binding]; other site 318161010253 metal binding site [ion binding]; metal-binding site 318161010254 Predicted permease; Region: DUF318; cl17795 318161010255 Predicted permease; Region: DUF318; cl17795 318161010256 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 318161010257 threonine dehydratase; Reviewed; Region: PRK09224 318161010258 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 318161010259 tetramer interface [polypeptide binding]; other site 318161010260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161010261 catalytic residue [active] 318161010262 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 318161010263 putative Ile/Val binding site [chemical binding]; other site 318161010264 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 318161010265 putative Ile/Val binding site [chemical binding]; other site 318161010266 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 318161010267 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 318161010268 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 318161010269 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 318161010270 PYR/PP interface [polypeptide binding]; other site 318161010271 dimer interface [polypeptide binding]; other site 318161010272 TPP binding site [chemical binding]; other site 318161010273 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 318161010274 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 318161010275 TPP-binding site [chemical binding]; other site 318161010276 dimer interface [polypeptide binding]; other site 318161010277 ketol-acid reductoisomerase; Validated; Region: PRK05225 318161010278 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 318161010279 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318161010280 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 318161010281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161010282 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 318161010283 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 318161010284 putative dimerization interface [polypeptide binding]; other site 318161010285 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 318161010286 Domain of unknown function DUF21; Region: DUF21; pfam01595 318161010287 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 318161010288 Transporter associated domain; Region: CorC_HlyC; smart01091 318161010289 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 318161010290 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 318161010291 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 318161010292 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 318161010293 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 318161010294 Walker A motif; other site 318161010295 ATP binding site [chemical binding]; other site 318161010296 Walker B motif; other site 318161010297 arginine finger; other site 318161010298 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 318161010299 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318161010300 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 318161010301 putative acyl-acceptor binding pocket; other site 318161010302 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 318161010303 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 318161010304 putative acyl-acceptor binding pocket; other site 318161010305 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 318161010306 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 318161010307 PAS domain S-box; Region: sensory_box; TIGR00229 318161010308 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 318161010309 heme pocket [chemical binding]; other site 318161010310 putative active site [active] 318161010311 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 318161010312 PAS domain; Region: PAS_9; pfam13426 318161010313 putative active site [active] 318161010314 heme pocket [chemical binding]; other site 318161010315 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161010316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161010317 metal binding site [ion binding]; metal-binding site 318161010318 active site 318161010319 I-site; other site 318161010320 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 318161010321 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 318161010322 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 318161010323 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 318161010324 tetramer interface [polypeptide binding]; other site 318161010325 active site 318161010326 Mg2+/Mn2+ binding site [ion binding]; other site 318161010327 dUMP phosphatase; Provisional; Region: PRK09449 318161010328 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 318161010329 motif II; other site 318161010330 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161010331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161010332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161010333 putative substrate translocation pore; other site 318161010334 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161010335 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161010336 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161010337 Phosphotransferase enzyme family; Region: APH; pfam01636 318161010338 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 318161010339 active site 318161010340 substrate binding site [chemical binding]; other site 318161010341 ATP binding site [chemical binding]; other site 318161010342 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 318161010343 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 318161010344 catalytic site [active] 318161010345 G-X2-G-X-G-K; other site 318161010346 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 318161010347 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 318161010348 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161010349 Zn2+ binding site [ion binding]; other site 318161010350 Mg2+ binding site [ion binding]; other site 318161010351 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 318161010352 synthetase active site [active] 318161010353 NTP binding site [chemical binding]; other site 318161010354 metal binding site [ion binding]; metal-binding site 318161010355 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 318161010356 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 318161010357 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 318161010358 homotrimer interaction site [polypeptide binding]; other site 318161010359 putative active site [active] 318161010360 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 318161010361 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 318161010362 acyl-activating enzyme (AAE) consensus motif; other site 318161010363 putative AMP binding site [chemical binding]; other site 318161010364 putative active site [active] 318161010365 putative CoA binding site [chemical binding]; other site 318161010366 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318161010367 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 318161010368 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 318161010369 hypothetical protein; Provisional; Region: PRK01254 318161010370 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 318161010371 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 318161010372 MAPEG family; Region: MAPEG; cl09190 318161010373 Uncharacterized conserved protein [Function unknown]; Region: COG2966 318161010374 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 318161010375 Uncharacterized conserved protein [Function unknown]; Region: COG3610 318161010376 Surface antigen; Region: Bac_surface_Ag; pfam01103 318161010377 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 318161010378 Ligand Binding Site [chemical binding]; other site 318161010379 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 318161010380 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 318161010381 ligand binding site [chemical binding]; other site 318161010382 flexible hinge region; other site 318161010383 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 318161010384 non-specific DNA interactions [nucleotide binding]; other site 318161010385 DNA binding site [nucleotide binding] 318161010386 sequence specific DNA binding site [nucleotide binding]; other site 318161010387 putative cAMP binding site [chemical binding]; other site 318161010388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161010389 Transposase; Region: DEDD_Tnp_IS110; pfam01548 318161010390 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161010391 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 318161010392 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 318161010393 putative active site [active] 318161010394 dimerization interface [polypeptide binding]; other site 318161010395 putative tRNAtyr binding site [nucleotide binding]; other site 318161010396 hypothetical protein; Reviewed; Region: PRK01637 318161010397 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 318161010398 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 318161010399 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 318161010400 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 318161010401 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161010402 catalytic residue [active] 318161010403 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 318161010404 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 318161010405 glutamine synthetase; Provisional; Region: glnA; PRK09469 318161010406 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 318161010407 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 318161010408 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 318161010409 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 318161010410 G1 box; other site 318161010411 putative GEF interaction site [polypeptide binding]; other site 318161010412 GTP/Mg2+ binding site [chemical binding]; other site 318161010413 Switch I region; other site 318161010414 G2 box; other site 318161010415 G3 box; other site 318161010416 Switch II region; other site 318161010417 G4 box; other site 318161010418 G5 box; other site 318161010419 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 318161010420 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 318161010421 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 318161010422 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 318161010423 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 318161010424 dimer interface [polypeptide binding]; other site 318161010425 phosphorylation site [posttranslational modification] 318161010426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161010427 ATP binding site [chemical binding]; other site 318161010428 Mg2+ binding site [ion binding]; other site 318161010429 G-X-G motif; other site 318161010430 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 318161010431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161010432 active site 318161010433 phosphorylation site [posttranslational modification] 318161010434 intermolecular recognition site; other site 318161010435 dimerization interface [polypeptide binding]; other site 318161010436 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 318161010437 Walker A motif; other site 318161010438 ATP binding site [chemical binding]; other site 318161010439 Walker B motif; other site 318161010440 arginine finger; other site 318161010441 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161010442 Cation efflux family; Region: Cation_efflux; cl00316 318161010443 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 318161010444 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 318161010445 dimer interface [polypeptide binding]; other site 318161010446 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 318161010447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161010448 active site 318161010449 phosphorylation site [posttranslational modification] 318161010450 intermolecular recognition site; other site 318161010451 dimerization interface [polypeptide binding]; other site 318161010452 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 318161010453 DNA binding site [nucleotide binding] 318161010454 two-component sensor protein; Provisional; Region: cpxA; PRK09470 318161010455 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 318161010456 dimerization interface [polypeptide binding]; other site 318161010457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161010458 ATP binding site [chemical binding]; other site 318161010459 Mg2+ binding site [ion binding]; other site 318161010460 G-X-G motif; other site 318161010461 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161010462 Protein export membrane protein; Region: SecD_SecF; cl14618 318161010463 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161010464 Protein export membrane protein; Region: SecD_SecF; cl14618 318161010465 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 318161010466 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161010467 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 318161010468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161010469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161010470 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 318161010471 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 318161010472 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 318161010473 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 318161010474 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 318161010475 catalytic loop [active] 318161010476 iron binding site [ion binding]; other site 318161010477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161010478 H+ Antiporter protein; Region: 2A0121; TIGR00900 318161010479 putative substrate translocation pore; other site 318161010480 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 318161010481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 318161010482 Histidine kinase; Region: HisKA_3; pfam07730 318161010483 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 318161010484 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 318161010485 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161010486 active site 318161010487 phosphorylation site [posttranslational modification] 318161010488 intermolecular recognition site; other site 318161010489 dimerization interface [polypeptide binding]; other site 318161010490 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 318161010491 DNA binding residues [nucleotide binding] 318161010492 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 318161010493 Y-family of DNA polymerases; Region: PolY; cl12025 318161010494 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 318161010495 generic binding surface II; other site 318161010496 ssDNA binding site; other site 318161010497 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 318161010498 ATP binding site [chemical binding]; other site 318161010499 putative Mg++ binding site [ion binding]; other site 318161010500 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 318161010501 nucleotide binding region [chemical binding]; other site 318161010502 ATP-binding site [chemical binding]; other site 318161010503 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 318161010504 azoreductase; Reviewed; Region: PRK00170 318161010505 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 318161010506 Protein of unknown function (DUF461); Region: DUF461; pfam04314 318161010507 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 318161010508 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 318161010509 Cu(I) binding site [ion binding]; other site 318161010510 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 318161010511 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 318161010512 Multicopper oxidase; Region: Cu-oxidase; pfam00394 318161010513 FOG: WD40 repeat [General function prediction only]; Region: COG2319 318161010514 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 318161010515 structural tetrad; other site 318161010516 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 318161010517 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318161010518 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318161010519 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318161010520 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 318161010521 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 318161010522 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 318161010523 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 318161010524 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 318161010525 metal binding site [ion binding]; metal-binding site 318161010526 putative dimer interface [polypeptide binding]; other site 318161010527 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318161010528 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 318161010529 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 318161010530 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 318161010531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 318161010532 HTH-like domain; Region: HTH_21; pfam13276 318161010533 Integrase core domain; Region: rve; pfam00665 318161010534 Integrase core domain; Region: rve_3; pfam13683 318161010535 DTW domain; Region: DTW; cl01221 318161010536 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 318161010537 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161010538 putative substrate translocation pore; other site 318161010539 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 318161010540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161010541 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 318161010542 substrate binding pocket [chemical binding]; other site 318161010543 dimerization interface [polypeptide binding]; other site 318161010544 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 318161010545 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 318161010546 putative metal binding site [ion binding]; other site 318161010547 putative transporter; Provisional; Region: PRK11021 318161010548 HDOD domain; Region: HDOD; pfam08668 318161010549 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 318161010550 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 318161010551 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161010552 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 318161010553 DNA binding residues [nucleotide binding] 318161010554 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 318161010555 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 318161010556 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 318161010557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161010558 Walker A/P-loop; other site 318161010559 ATP binding site [chemical binding]; other site 318161010560 Q-loop/lid; other site 318161010561 ABC transporter signature motif; other site 318161010562 Walker B; other site 318161010563 D-loop; other site 318161010564 H-loop/switch region; other site 318161010565 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 318161010566 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 318161010567 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 318161010568 P loop; other site 318161010569 GTP binding site [chemical binding]; other site 318161010570 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 318161010571 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161010572 S-adenosylmethionine binding site [chemical binding]; other site 318161010573 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 318161010574 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161010575 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 318161010576 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 318161010577 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 318161010578 putative C-terminal domain interface [polypeptide binding]; other site 318161010579 putative GSH binding site (G-site) [chemical binding]; other site 318161010580 putative dimer interface [polypeptide binding]; other site 318161010581 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318161010582 N-terminal domain interface [polypeptide binding]; other site 318161010583 dimer interface [polypeptide binding]; other site 318161010584 substrate binding pocket (H-site) [chemical binding]; other site 318161010585 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 318161010586 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161010587 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 318161010588 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 318161010589 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 318161010590 aromatic amino acid transport protein; Region: araaP; TIGR00837 318161010591 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 318161010592 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 318161010593 putative acyl-acceptor binding pocket; other site 318161010594 LexA repressor; Validated; Region: PRK00215 318161010595 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 318161010596 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 318161010597 Catalytic site [active] 318161010598 Cell division inhibitor SulA; Region: SulA; cl01880 318161010599 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 318161010600 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 318161010601 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 318161010602 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318161010603 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 318161010604 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 318161010605 Cytochrome c; Region: Cytochrom_C; pfam00034 318161010606 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 318161010607 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 318161010608 Subunit I/III interface [polypeptide binding]; other site 318161010609 D-pathway; other site 318161010610 Subunit I/VIIc interface [polypeptide binding]; other site 318161010611 Subunit I/IV interface [polypeptide binding]; other site 318161010612 Subunit I/II interface [polypeptide binding]; other site 318161010613 Low-spin heme (heme a) binding site [chemical binding]; other site 318161010614 Subunit I/VIIa interface [polypeptide binding]; other site 318161010615 Subunit I/VIa interface [polypeptide binding]; other site 318161010616 Dimer interface; other site 318161010617 Putative water exit pathway; other site 318161010618 Binuclear center (heme a3/CuB) [ion binding]; other site 318161010619 K-pathway; other site 318161010620 Subunit I/Vb interface [polypeptide binding]; other site 318161010621 Putative proton exit pathway; other site 318161010622 Subunit I/VIb interface; other site 318161010623 Subunit I/VIc interface [polypeptide binding]; other site 318161010624 Electron transfer pathway; other site 318161010625 Subunit I/VIIIb interface [polypeptide binding]; other site 318161010626 Subunit I/VIIb interface [polypeptide binding]; other site 318161010627 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 318161010628 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 318161010629 Subunit III/VIIa interface [polypeptide binding]; other site 318161010630 Phospholipid binding site [chemical binding]; other site 318161010631 Subunit I/III interface [polypeptide binding]; other site 318161010632 Subunit III/VIb interface [polypeptide binding]; other site 318161010633 Subunit III/VIa interface; other site 318161010634 Subunit III/Vb interface [polypeptide binding]; other site 318161010635 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 318161010636 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 318161010637 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 318161010638 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 318161010639 UbiA prenyltransferase family; Region: UbiA; pfam01040 318161010640 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 318161010641 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 318161010642 Cu(I) binding site [ion binding]; other site 318161010643 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 318161010644 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 318161010645 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 318161010646 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 318161010647 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 318161010648 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 318161010649 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 318161010650 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 318161010651 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 318161010652 active site 318161010653 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 318161010654 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 318161010655 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 318161010656 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 318161010657 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 318161010658 acyl-activating enzyme (AAE) consensus motif; other site 318161010659 putative AMP binding site [chemical binding]; other site 318161010660 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 318161010661 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 318161010662 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 318161010663 active site 318161010664 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 318161010665 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161010666 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 318161010667 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 318161010668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 318161010669 catalytic residue [active] 318161010670 Condensation domain; Region: Condensation; pfam00668 318161010671 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161010672 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161010673 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 318161010674 acyl-activating enzyme (AAE) consensus motif; other site 318161010675 AMP binding site [chemical binding]; other site 318161010676 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161010677 Condensation domain; Region: Condensation; pfam00668 318161010678 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161010679 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161010680 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 318161010681 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 318161010682 active site 318161010683 dimer interface [polypeptide binding]; other site 318161010684 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 318161010685 Ligand Binding Site [chemical binding]; other site 318161010686 Molecular Tunnel; other site 318161010687 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 318161010688 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161010689 acyl-activating enzyme (AAE) consensus motif; other site 318161010690 AMP binding site [chemical binding]; other site 318161010691 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161010692 Condensation domain; Region: Condensation; pfam00668 318161010693 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 318161010694 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161010695 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 318161010696 acyl-activating enzyme (AAE) consensus motif; other site 318161010697 AMP binding site [chemical binding]; other site 318161010698 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161010699 Condensation domain; Region: Condensation; pfam00668 318161010700 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 318161010701 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 318161010702 Beta-lactamase; Region: Beta-lactamase; pfam00144 318161010703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161010704 putative substrate translocation pore; other site 318161010705 SnoaL-like domain; Region: SnoaL_3; pfam13474 318161010706 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 318161010707 osmolarity response regulator; Provisional; Region: ompR; PRK09468 318161010708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161010709 active site 318161010710 phosphorylation site [posttranslational modification] 318161010711 intermolecular recognition site; other site 318161010712 dimerization interface [polypeptide binding]; other site 318161010713 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 318161010714 DNA binding site [nucleotide binding] 318161010715 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 318161010716 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 318161010717 dimerization interface [polypeptide binding]; other site 318161010718 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 318161010719 dimer interface [polypeptide binding]; other site 318161010720 phosphorylation site [posttranslational modification] 318161010721 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161010722 ATP binding site [chemical binding]; other site 318161010723 Mg2+ binding site [ion binding]; other site 318161010724 G-X-G motif; other site 318161010725 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 318161010726 HAMP domain; Region: HAMP; pfam00672 318161010727 dimerization interface [polypeptide binding]; other site 318161010728 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 318161010729 dimer interface [polypeptide binding]; other site 318161010730 putative CheW interface [polypeptide binding]; other site 318161010731 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 318161010732 catalytic triad [active] 318161010733 dimer interface [polypeptide binding]; other site 318161010734 SnoaL-like domain; Region: SnoaL_3; pfam13474 318161010735 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 318161010736 Copper resistance protein D; Region: CopD; pfam05425 318161010737 CopC domain; Region: CopC; pfam04234 318161010738 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 318161010739 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 318161010740 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 318161010741 Multicopper oxidase; Region: Cu-oxidase; pfam00394 318161010742 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 318161010743 Protein of unknown function, DUF; Region: DUF411; cl01142 318161010744 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161010745 Major Facilitator Superfamily; Region: MFS_1; pfam07690 318161010746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161010747 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 318161010748 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 318161010749 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 318161010750 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 318161010751 Low molecular weight phosphatase family; Region: LMWPc; cd00115 318161010752 active site 318161010753 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 318161010754 dimerization interface [polypeptide binding]; other site 318161010755 putative DNA binding site [nucleotide binding]; other site 318161010756 putative Zn2+ binding site [ion binding]; other site 318161010757 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 318161010758 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 318161010759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 318161010760 Coenzyme A binding pocket [chemical binding]; other site 318161010761 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 318161010762 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 318161010763 Sulfatase; Region: Sulfatase; pfam00884 318161010764 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 318161010765 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 318161010766 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 318161010767 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 318161010768 catalytic residues [active] 318161010769 central insert; other site 318161010770 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 318161010771 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 318161010772 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 318161010773 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 318161010774 binding surface 318161010775 TPR motif; other site 318161010776 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 318161010777 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 318161010778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 318161010779 Walker A/P-loop; other site 318161010780 ATP binding site [chemical binding]; other site 318161010781 Q-loop/lid; other site 318161010782 ABC transporter signature motif; other site 318161010783 Walker B; other site 318161010784 D-loop; other site 318161010785 H-loop/switch region; other site 318161010786 CcmB protein; Region: CcmB; pfam03379 318161010787 heme exporter protein CcmC; Region: ccmC; TIGR01191 318161010788 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 318161010789 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 318161010790 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 318161010791 TIR domain; Region: TIR_2; pfam13676 318161010792 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 318161010793 TIR domain; Region: TIR_2; pfam13676 318161010794 Winged helix-turn helix; Region: HTH_29; pfam13551 318161010795 Helix-turn-helix domain; Region: HTH_28; pfam13518 318161010796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 318161010797 Integrase core domain; Region: rve; pfam00665 318161010798 Integrase core domain; Region: rve_3; pfam13683 318161010799 TIR domain; Region: TIR_2; pfam13676 318161010800 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 318161010801 DNA binding site [nucleotide binding] 318161010802 active site 318161010803 Int/Topo IB signature motif; other site 318161010804 catalytic residues [active] 318161010805 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 318161010806 Helix-turn-helix domain; Region: HTH_38; pfam13936 318161010807 DNA-binding interface [nucleotide binding]; DNA binding site 318161010808 Integrase core domain; Region: rve; pfam00665 318161010809 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 318161010810 glutathione reductase; Validated; Region: PRK06116 318161010811 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161010812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161010813 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 318161010814 oligopeptidase A; Provisional; Region: PRK10911 318161010815 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 318161010816 active site 318161010817 Zn binding site [ion binding]; other site 318161010818 Flagellar protein YcgR; Region: YcgR_2; pfam12945 318161010819 PilZ domain; Region: PilZ; pfam07238 318161010820 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 318161010821 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 318161010822 sequence-specific DNA binding site [nucleotide binding]; other site 318161010823 salt bridge; other site 318161010824 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 318161010825 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 318161010826 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 318161010827 active site 318161010828 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 318161010829 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161010830 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 318161010831 Protein export membrane protein; Region: SecD_SecF; cl14618 318161010832 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161010833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161010834 active site 318161010835 phosphorylation site [posttranslational modification] 318161010836 intermolecular recognition site; other site 318161010837 dimerization interface [polypeptide binding]; other site 318161010838 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 318161010839 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161010840 metal binding site [ion binding]; metal-binding site 318161010841 active site 318161010842 I-site; other site 318161010843 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 318161010844 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 318161010845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161010846 active site 318161010847 phosphorylation site [posttranslational modification] 318161010848 intermolecular recognition site; other site 318161010849 dimerization interface [polypeptide binding]; other site 318161010850 CHASE domain; Region: CHASE; cl01369 318161010851 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 318161010852 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 318161010853 putative active site [active] 318161010854 heme pocket [chemical binding]; other site 318161010855 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 318161010856 dimer interface [polypeptide binding]; other site 318161010857 phosphorylation site [posttranslational modification] 318161010858 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161010859 ATP binding site [chemical binding]; other site 318161010860 Mg2+ binding site [ion binding]; other site 318161010861 G-X-G motif; other site 318161010862 LemA family; Region: LemA; cl00742 318161010863 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 318161010864 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 318161010865 N-acetyl-D-glucosamine binding site [chemical binding]; other site 318161010866 catalytic residue [active] 318161010867 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 318161010868 Peptidase family M28; Region: Peptidase_M28; pfam04389 318161010869 putative metal binding site [ion binding]; other site 318161010870 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 318161010871 Interdomain contacts; other site 318161010872 Cytokine receptor motif; other site 318161010873 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 318161010874 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161010875 S-adenosylmethionine binding site [chemical binding]; other site 318161010876 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 318161010877 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 318161010878 putative active site [active] 318161010879 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 318161010880 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 318161010881 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 318161010882 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 318161010883 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 318161010884 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 318161010885 Bacterial transcriptional repressor; Region: TetR; pfam13972 318161010886 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 318161010887 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 318161010888 substrate-cofactor binding pocket; other site 318161010889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 318161010890 catalytic residue [active] 318161010891 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 318161010892 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 318161010893 NAD(P) binding site [chemical binding]; other site 318161010894 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 318161010895 active site residue [active] 318161010896 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 318161010897 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 318161010898 Rhomboid family; Region: Rhomboid; pfam01694 318161010899 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 318161010900 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 318161010901 conserved cys residue [active] 318161010902 DNA polymerase I; Provisional; Region: PRK05755 318161010903 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 318161010904 active site 318161010905 metal binding site 1 [ion binding]; metal-binding site 318161010906 putative 5' ssDNA interaction site; other site 318161010907 metal binding site 3; metal-binding site 318161010908 metal binding site 2 [ion binding]; metal-binding site 318161010909 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 318161010910 putative DNA binding site [nucleotide binding]; other site 318161010911 putative metal binding site [ion binding]; other site 318161010912 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 318161010913 active site 318161010914 catalytic site [active] 318161010915 substrate binding site [chemical binding]; other site 318161010916 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 318161010917 active site 318161010918 DNA binding site [nucleotide binding] 318161010919 catalytic site [active] 318161010920 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 318161010921 G1 box; other site 318161010922 GTP/Mg2+ binding site [chemical binding]; other site 318161010923 Switch I region; other site 318161010924 G2 box; other site 318161010925 G3 box; other site 318161010926 Switch II region; other site 318161010927 G4 box; other site 318161010928 G5 box; other site 318161010929 Cytochrome c553 [Energy production and conversion]; Region: COG2863 318161010930 Cytochrome c; Region: Cytochrom_C; cl11414 318161010931 Methyltransferase domain; Region: Methyltransf_23; pfam13489 318161010932 Der GTPase activator (YihI); Region: YihI; pfam04220 318161010933 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 318161010934 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 318161010935 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 318161010936 FeS/SAM binding site; other site 318161010937 HemN C-terminal domain; Region: HemN_C; pfam06969 318161010938 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 318161010939 adenosine deaminase; Provisional; Region: PRK09358 318161010940 active site 318161010941 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 318161010942 PilZ domain; Region: PilZ; pfam07238 318161010943 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 318161010944 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 318161010945 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 318161010946 ligand binding site [chemical binding]; other site 318161010947 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 318161010948 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 318161010949 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 318161010950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 318161010951 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 318161010952 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 318161010953 DNA binding residues [nucleotide binding] 318161010954 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 318161010955 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 318161010956 Flagellar protein FliS; Region: FliS; cl00654 318161010957 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 318161010958 flagellar capping protein; Reviewed; Region: fliD; PRK08032 318161010959 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 318161010960 flagellin; Provisional; Region: PRK12802 318161010961 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318161010962 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 318161010963 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 318161010964 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 318161010965 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 318161010966 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161010967 peptidoglycan hydrolase; Reviewed; Region: flgJ; PRK12708 318161010968 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 318161010969 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 318161010970 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 318161010971 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 318161010972 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 318161010973 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161010974 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161010975 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 318161010976 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161010977 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 318161010978 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 318161010979 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 318161010980 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161010981 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 318161010982 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 318161010983 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 318161010984 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 318161010985 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 318161010986 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 318161010987 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 318161010988 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 318161010989 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 318161010990 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 318161010991 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 318161010992 FlgN protein; Region: FlgN; pfam05130 318161010993 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 318161010994 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318161010995 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 318161010996 Walker A motif; other site 318161010997 ATP binding site [chemical binding]; other site 318161010998 Walker B motif; other site 318161010999 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 318161011000 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 318161011001 Flagellar assembly protein FliH; Region: FliH; pfam02108 318161011002 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 318161011003 FliG C-terminal domain; Region: FliG_C; pfam01706 318161011004 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 318161011005 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 318161011006 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 318161011007 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 318161011008 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318161011009 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 318161011010 Walker A motif; other site 318161011011 ATP binding site [chemical binding]; other site 318161011012 Walker B motif; other site 318161011013 arginine finger; other site 318161011014 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161011015 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 318161011016 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 318161011017 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 318161011018 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 318161011019 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 318161011020 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 318161011021 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 318161011022 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 318161011023 FHIPEP family; Region: FHIPEP; pfam00771 318161011024 lysophospholipase L2; Provisional; Region: PRK10749 318161011025 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 318161011026 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 318161011027 PAS fold; Region: PAS_3; pfam08447 318161011028 putative active site [active] 318161011029 heme pocket [chemical binding]; other site 318161011030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 318161011031 metal binding site [ion binding]; metal-binding site 318161011032 active site 318161011033 I-site; other site 318161011034 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 318161011035 Peptidase S8 family domain, uncharacterized subfamily 11; Region: Peptidases_S8_11; cd04843 318161011036 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 318161011037 putative active site [active] 318161011038 putative catalytic triad [active] 318161011039 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 318161011040 Transposase IS200 like; Region: Transposase_17; cl00848 318161011041 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 318161011042 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 318161011043 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161011044 RHS Repeat; Region: RHS_repeat; pfam05593 318161011045 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161011046 RHS Repeat; Region: RHS_repeat; pfam05593 318161011047 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161011048 RHS Repeat; Region: RHS_repeat; pfam05593 318161011049 RHS Repeat; Region: RHS_repeat; pfam05593 318161011050 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 318161011051 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 318161011052 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 318161011053 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318161011054 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161011055 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161011056 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161011057 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318161011058 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161011059 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 318161011060 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161011061 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 318161011062 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 318161011063 TPR motif; other site 318161011064 binding surface 318161011065 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 318161011066 binding surface 318161011067 TPR motif; other site 318161011068 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 318161011069 TPR motif; other site 318161011070 binding surface 318161011071 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 318161011072 MPT binding site; other site 318161011073 trimer interface [polypeptide binding]; other site 318161011074 NlpC/P60 family; Region: NLPC_P60; pfam00877 318161011075 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 318161011076 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 318161011077 DNA binding residues [nucleotide binding] 318161011078 dimer interface [polypeptide binding]; other site 318161011079 copper binding site [ion binding]; other site 318161011080 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318161011081 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 318161011082 metal-binding site [ion binding] 318161011083 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 318161011084 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 318161011085 metal-binding site [ion binding] 318161011086 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 318161011087 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 318161011088 motif II; other site 318161011089 HI0933-like protein; Region: HI0933_like; pfam03486 318161011090 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 318161011091 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 318161011092 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 318161011093 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 318161011094 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 318161011095 SecA binding site; other site 318161011096 Preprotein binding site; other site 318161011097 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 318161011098 active site residue [active] 318161011099 phosphoglyceromutase; Provisional; Region: PRK05434 318161011100 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 318161011101 AmiB activator; Provisional; Region: PRK11637 318161011102 Peptidase family M23; Region: Peptidase_M23; pfam01551 318161011103 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 318161011104 C-terminal peptidase (prc); Region: prc; TIGR00225 318161011105 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 318161011106 protein binding site [polypeptide binding]; other site 318161011107 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 318161011108 Catalytic dyad [active] 318161011109 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 318161011110 NodB motif; other site 318161011111 putative active site [active] 318161011112 putative catalytic site [active] 318161011113 Zn binding site [ion binding]; other site 318161011114 Transcriptional regulator; Region: Rrf2; cl17282 318161011115 Predicted transcriptional regulator [Transcription]; Region: COG1959 318161011116 Flagellin N-methylase; Region: FliB; pfam03692 318161011117 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 318161011118 4Fe-4S binding domain; Region: Fer4_5; pfam12801 318161011119 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 318161011120 Predicted membrane protein [Function unknown]; Region: COG3205 318161011121 BON domain; Region: BON; pfam04972 318161011122 BON domain; Region: BON; pfam04972 318161011123 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 318161011124 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 318161011125 Walker A motif; other site 318161011126 ATP binding site [chemical binding]; other site 318161011127 Walker B motif; other site 318161011128 arginine finger; other site 318161011129 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 318161011130 hypothetical protein; Provisional; Region: PRK12361 318161011131 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 318161011132 active site 318161011133 catalytic residues [active] 318161011134 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 318161011135 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 318161011136 Protein phosphatase 2C; Region: PP2C; pfam00481 318161011137 active site 318161011138 Protein kinase domain; Region: Pkinase; pfam00069 318161011139 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318161011140 active site 318161011141 ATP binding site [chemical binding]; other site 318161011142 substrate binding site [chemical binding]; other site 318161011143 activation loop (A-loop); other site 318161011144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161011145 putative substrate translocation pore; other site 318161011146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 318161011147 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 318161011148 nitrite reductase subunit NirD; Provisional; Region: PRK14989 318161011149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 318161011150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 318161011151 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 318161011152 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 318161011153 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 318161011154 active site 318161011155 SAM binding site [chemical binding]; other site 318161011156 homodimer interface [polypeptide binding]; other site 318161011157 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 318161011158 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 318161011159 [4Fe-4S] binding site [ion binding]; other site 318161011160 molybdopterin cofactor binding site; other site 318161011161 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 318161011162 molybdopterin cofactor binding site; other site 318161011163 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 318161011164 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 318161011165 Putative esterase; Region: Esterase; pfam00756 318161011166 Transposase, Mutator family; Region: Transposase_mut; pfam00872 318161011167 MULE transposase domain; Region: MULE; pfam10551 318161011168 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 318161011169 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 318161011170 non-specific DNA binding site [nucleotide binding]; other site 318161011171 salt bridge; other site 318161011172 sequence-specific DNA binding site [nucleotide binding]; other site 318161011173 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 318161011174 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318161011175 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318161011176 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 318161011177 PAS domain S-box; Region: sensory_box; TIGR00229 318161011178 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 318161011179 putative active site [active] 318161011180 heme pocket [chemical binding]; other site 318161011181 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 318161011182 PAS fold; Region: PAS_3; pfam08447 318161011183 putative active site [active] 318161011184 heme pocket [chemical binding]; other site 318161011185 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 318161011186 dimer interface [polypeptide binding]; other site 318161011187 phosphorylation site [posttranslational modification] 318161011188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 318161011189 ATP binding site [chemical binding]; other site 318161011190 Mg2+ binding site [ion binding]; other site 318161011191 G-X-G motif; other site 318161011192 Response regulator receiver domain; Region: Response_reg; pfam00072 318161011193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161011194 active site 318161011195 phosphorylation site [posttranslational modification] 318161011196 intermolecular recognition site; other site 318161011197 dimerization interface [polypeptide binding]; other site 318161011198 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 318161011199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 318161011200 active site 318161011201 phosphorylation site [posttranslational modification] 318161011202 intermolecular recognition site; other site 318161011203 dimerization interface [polypeptide binding]; other site 318161011204 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 318161011205 Zn2+ binding site [ion binding]; other site 318161011206 Mg2+ binding site [ion binding]; other site 318161011207 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 318161011208 Catalytic domain of Protein Kinases; Region: PKc; cd00180 318161011209 active site 318161011210 ATP binding site [chemical binding]; other site 318161011211 substrate binding site [chemical binding]; other site 318161011212 activation loop (A-loop); other site 318161011213 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 318161011214 phosphopeptide binding site; other site 318161011215 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 318161011216 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 318161011217 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 318161011218 Bacterial Ig-like domain; Region: Big_5; pfam13205 318161011219 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 318161011220 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 318161011221 Phage Tail Collar Domain; Region: Collar; pfam07484 318161011222 Condensation domain; Region: Condensation; pfam00668 318161011223 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 318161011224 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 318161011225 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 318161011226 acyl-activating enzyme (AAE) consensus motif; other site 318161011227 AMP binding site [chemical binding]; other site 318161011228 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161011229 Condensation domain; Region: Condensation; pfam00668 318161011230 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 318161011231 AMP-binding enzyme; Region: AMP-binding; pfam00501 318161011232 acyl-activating enzyme (AAE) consensus motif; other site 318161011233 AMP binding site [chemical binding]; other site 318161011234 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 318161011235 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 318161011236 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 318161011237 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 318161011238 active site 318161011239 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 318161011240 AMP-binding enzyme; Region: AMP-binding; pfam00501 318161011241 acyl-activating enzyme (AAE) consensus motif; other site 318161011242 active site 318161011243 AMP binding site [chemical binding]; other site 318161011244 CoA binding site [chemical binding]; other site 318161011245 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 318161011246 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 318161011247 HlyD family secretion protein; Region: HlyD_3; pfam13437 318161011248 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 318161011249 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 318161011250 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 318161011251 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 318161011252 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 318161011253 glutaminase active site [active] 318161011254 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 318161011255 dimer interface [polypeptide binding]; other site 318161011256 active site 318161011257 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 318161011258 dimer interface [polypeptide binding]; other site 318161011259 active site 318161011260 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 318161011261 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 318161011262 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 318161011263 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 318161011264 Isochorismatase family; Region: Isochorismatase; pfam00857 318161011265 dimer interface [polypeptide binding]; other site 318161011266 catalytic triad [active] 318161011267 conserved cis-peptide bond; other site 318161011268 Pirin-related protein [General function prediction only]; Region: COG1741 318161011269 Pirin; Region: Pirin; pfam02678 318161011270 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 318161011271 LysR family transcriptional regulator; Provisional; Region: PRK14997 318161011272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161011273 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 318161011274 putative effector binding pocket; other site 318161011275 putative dimerization interface [polypeptide binding]; other site 318161011276 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 318161011277 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 318161011278 Substrate binding site; other site 318161011279 Mg++ binding site; other site 318161011280 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 318161011281 active site 318161011282 substrate binding site [chemical binding]; other site 318161011283 CoA binding site [chemical binding]; other site 318161011284 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 318161011285 DNA binding residues [nucleotide binding] 318161011286 dimerization interface [polypeptide binding]; other site 318161011287 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 318161011288 DNA binding site [nucleotide binding] 318161011289 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 318161011290 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 318161011291 gamma subunit interface [polypeptide binding]; other site 318161011292 epsilon subunit interface [polypeptide binding]; other site 318161011293 LBP interface [polypeptide binding]; other site 318161011294 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 318161011295 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318161011296 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 318161011297 alpha subunit interaction interface [polypeptide binding]; other site 318161011298 Walker A motif; other site 318161011299 ATP binding site [chemical binding]; other site 318161011300 Walker B motif; other site 318161011301 inhibitor binding site; inhibition site 318161011302 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318161011303 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 318161011304 core domain interface [polypeptide binding]; other site 318161011305 delta subunit interface [polypeptide binding]; other site 318161011306 epsilon subunit interface [polypeptide binding]; other site 318161011307 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 318161011308 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 318161011309 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 318161011310 beta subunit interaction interface [polypeptide binding]; other site 318161011311 Walker A motif; other site 318161011312 ATP binding site [chemical binding]; other site 318161011313 Walker B motif; other site 318161011314 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 318161011315 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 318161011316 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 318161011317 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 318161011318 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 318161011319 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 318161011320 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 318161011321 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 318161011322 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 318161011323 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 318161011324 ParB-like nuclease domain; Region: ParBc; pfam02195 318161011325 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 318161011326 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 318161011327 P-loop; other site 318161011328 Magnesium ion binding site [ion binding]; other site 318161011329 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 318161011330 Magnesium ion binding site [ion binding]; other site 318161011331 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 318161011332 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 318161011333 S-adenosylmethionine binding site [chemical binding]; other site 318161011334 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 318161011335 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 318161011336 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 318161011337 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 318161011338 FMN-binding protein MioC; Provisional; Region: PRK09004 318161011339 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 318161011340 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 318161011341 S-formylglutathione hydrolase; Region: PLN02442 318161011342 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 318161011343 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 318161011344 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 318161011345 substrate binding site [chemical binding]; other site 318161011346 catalytic Zn binding site [ion binding]; other site 318161011347 NAD binding site [chemical binding]; other site 318161011348 structural Zn binding site [ion binding]; other site 318161011349 dimer interface [polypeptide binding]; other site 318161011350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 318161011351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 318161011352 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 318161011353 putative effector binding pocket; other site 318161011354 putative dimerization interface [polypeptide binding]; other site 318161011355 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 318161011356 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 318161011357 putative active site [active] 318161011358 putative dimer interface [polypeptide binding]; other site 318161011359 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 318161011360 ATP-grasp domain; Region: ATP-grasp_4; cl17255 318161011361 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 318161011362 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 318161011363 active site 318161011364 dimer interface [polypeptide binding]; other site 318161011365 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 318161011366 Ligand Binding Site [chemical binding]; other site 318161011367 Molecular Tunnel; other site 318161011368 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 318161011369 active site 318161011370 catalytic site [active] 318161011371 substrate binding site [chemical binding]; other site 318161011372 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 318161011373 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 318161011374 trmE is a tRNA modification GTPase; Region: trmE; cd04164 318161011375 G1 box; other site 318161011376 GTP/Mg2+ binding site [chemical binding]; other site 318161011377 Switch I region; other site 318161011378 G2 box; other site 318161011379 Switch II region; other site 318161011380 G3 box; other site 318161011381 G4 box; other site 318161011382 G5 box; other site 318161011383 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 318161011384 membrane protein insertase; Provisional; Region: PRK01318 318161011385 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 318161011386 Haemolytic domain; Region: Haemolytic; pfam01809 318161011387 ribonuclease P; Reviewed; Region: rnpA; PRK01732 318161011388 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399