-- dump date 20140620_064449 -- class Genbank::misc_feature -- table misc_feature_note -- id note 319224000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 319224000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 319224000003 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 319224000004 Walker A motif; other site 319224000005 ATP binding site [chemical binding]; other site 319224000006 Walker B motif; other site 319224000007 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 319224000008 arginine finger; other site 319224000009 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 319224000010 DnaA box-binding interface [nucleotide binding]; other site 319224000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 319224000012 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 319224000013 putative DNA binding surface [nucleotide binding]; other site 319224000014 dimer interface [polypeptide binding]; other site 319224000015 beta-clamp/clamp loader binding surface; other site 319224000016 beta-clamp/translesion DNA polymerase binding surface; other site 319224000017 recombination protein F; Reviewed; Region: recF; PRK00064 319224000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224000019 Walker A/P-loop; other site 319224000020 ATP binding site [chemical binding]; other site 319224000021 Q-loop/lid; other site 319224000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224000023 ABC transporter signature motif; other site 319224000024 Walker B; other site 319224000025 D-loop; other site 319224000026 H-loop/switch region; other site 319224000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 319224000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000029 ATP binding site [chemical binding]; other site 319224000030 Mg2+ binding site [ion binding]; other site 319224000031 G-X-G motif; other site 319224000032 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 319224000033 anchoring element; other site 319224000034 dimer interface [polypeptide binding]; other site 319224000035 ATP binding site [chemical binding]; other site 319224000036 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 319224000037 active site 319224000038 putative metal-binding site [ion binding]; other site 319224000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 319224000040 HDOD domain; Region: HDOD; pfam08668 319224000041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224000042 Zn2+ binding site [ion binding]; other site 319224000043 Mg2+ binding site [ion binding]; other site 319224000044 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 319224000045 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 319224000046 dimer interface [polypeptide binding]; other site 319224000047 motif 1; other site 319224000048 active site 319224000049 motif 2; other site 319224000050 motif 3; other site 319224000051 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 319224000052 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224000053 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 319224000054 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 319224000055 Amidohydrolase; Region: Amidohydro_5; pfam13594 319224000056 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 319224000057 active site 319224000058 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 319224000059 MOSC domain; Region: MOSC; pfam03473 319224000060 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 319224000061 CPxP motif; other site 319224000062 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 319224000063 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 319224000064 dimer interface [polypeptide binding]; other site 319224000065 active site 319224000066 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 319224000067 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 319224000068 substrate binding site [chemical binding]; other site 319224000069 oxyanion hole (OAH) forming residues; other site 319224000070 trimer interface [polypeptide binding]; other site 319224000071 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 319224000072 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 319224000073 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 319224000074 proline dipeptidase; Provisional; Region: PRK13607 319224000075 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 319224000076 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 319224000077 active site 319224000078 hypothetical protein; Provisional; Region: PRK11568 319224000079 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 319224000080 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 319224000081 Cation transport protein; Region: TrkH; cl17365 319224000082 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 319224000083 Flavodoxin domain; Region: Flavodoxin_5; cl17428 319224000084 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 319224000085 dimerization interface [polypeptide binding]; other site 319224000086 putative DNA binding site [nucleotide binding]; other site 319224000087 putative Zn2+ binding site [ion binding]; other site 319224000088 Flavodoxin domain; Region: Flavodoxin_5; cl17428 319224000089 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 319224000090 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 319224000091 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 319224000092 TrkA-N domain; Region: TrkA_N; pfam02254 319224000093 TrkA-C domain; Region: TrkA_C; pfam02080 319224000094 TrkA-N domain; Region: TrkA_N; pfam02254 319224000095 TrkA-C domain; Region: TrkA_C; pfam02080 319224000096 16S rRNA methyltransferase B; Provisional; Region: PRK10901 319224000097 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 319224000098 putative RNA binding site [nucleotide binding]; other site 319224000099 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224000100 S-adenosylmethionine binding site [chemical binding]; other site 319224000101 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 319224000102 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 319224000103 putative active site [active] 319224000104 substrate binding site [chemical binding]; other site 319224000105 putative cosubstrate binding site; other site 319224000106 catalytic site [active] 319224000107 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 319224000108 substrate binding site [chemical binding]; other site 319224000109 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 319224000110 active site 319224000111 catalytic residues [active] 319224000112 metal binding site [ion binding]; metal-binding site 319224000113 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224000114 DNA protecting protein DprA; Region: dprA; TIGR00732 319224000115 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 319224000116 Protein of unknown function (DUF494); Region: DUF494; pfam04361 319224000117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319224000118 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 319224000119 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319224000120 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319224000121 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 319224000122 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 319224000123 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 319224000124 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 319224000125 apolar tunnel; other site 319224000126 heme binding site [chemical binding]; other site 319224000127 dimerization interface [polypeptide binding]; other site 319224000128 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 319224000129 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 319224000130 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 319224000131 shikimate binding site; other site 319224000132 NAD(P) binding site [chemical binding]; other site 319224000133 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 319224000134 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 319224000135 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 319224000136 trimer interface [polypeptide binding]; other site 319224000137 putative metal binding site [ion binding]; other site 319224000138 Flagellin N-methylase; Region: FliB; cl00497 319224000139 Transcriptional regulator; Region: Rrf2; cl17282 319224000140 Rrf2 family protein; Region: rrf2_super; TIGR00738 319224000141 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 319224000142 NodB motif; other site 319224000143 putative active site [active] 319224000144 putative catalytic site [active] 319224000145 Zn binding site [ion binding]; other site 319224000146 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 319224000147 C-terminal peptidase (prc); Region: prc; TIGR00225 319224000148 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 319224000149 protein binding site [polypeptide binding]; other site 319224000150 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319224000151 Catalytic dyad [active] 319224000152 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 319224000153 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224000154 phosphoglyceromutase; Provisional; Region: PRK05434 319224000155 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 319224000156 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 319224000157 active site residue [active] 319224000158 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 319224000159 SecA binding site; other site 319224000160 Preprotein binding site; other site 319224000161 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 319224000162 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 319224000163 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 319224000164 HI0933-like protein; Region: HI0933_like; pfam03486 319224000165 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224000166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 319224000167 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 319224000168 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 319224000169 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 319224000170 TrkA-N domain; Region: TrkA_N; pfam02254 319224000171 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224000172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000173 active site 319224000174 phosphorylation site [posttranslational modification] 319224000175 intermolecular recognition site; other site 319224000176 dimerization interface [polypeptide binding]; other site 319224000177 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 319224000178 DNA binding site [nucleotide binding] 319224000179 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 319224000180 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 319224000181 dimer interface [polypeptide binding]; other site 319224000182 phosphorylation site [posttranslational modification] 319224000183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000184 ATP binding site [chemical binding]; other site 319224000185 Mg2+ binding site [ion binding]; other site 319224000186 G-X-G motif; other site 319224000187 Pirin-related protein [General function prediction only]; Region: COG1741 319224000188 Pirin; Region: Pirin; pfam02678 319224000189 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 319224000190 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 319224000191 NlpC/P60 family; Region: NLPC_P60; pfam00877 319224000192 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 319224000193 MPT binding site; other site 319224000194 trimer interface [polypeptide binding]; other site 319224000195 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 319224000196 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 319224000197 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 319224000198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224000199 Walker A/P-loop; other site 319224000200 ATP binding site [chemical binding]; other site 319224000201 Q-loop/lid; other site 319224000202 ABC transporter signature motif; other site 319224000203 Walker B; other site 319224000204 D-loop; other site 319224000205 H-loop/switch region; other site 319224000206 TAP-like protein; Region: Abhydrolase_4; pfam08386 319224000207 Predicted transcriptional regulators [Transcription]; Region: COG1725 319224000208 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224000209 DNA-binding site [nucleotide binding]; DNA binding site 319224000210 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319224000211 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 319224000212 Walker A/P-loop; other site 319224000213 ATP binding site [chemical binding]; other site 319224000214 Q-loop/lid; other site 319224000215 ABC transporter signature motif; other site 319224000216 Walker B; other site 319224000217 D-loop; other site 319224000218 H-loop/switch region; other site 319224000219 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 319224000220 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 319224000221 acyl-activating enzyme (AAE) consensus motif; other site 319224000222 putative AMP binding site [chemical binding]; other site 319224000223 putative active site [active] 319224000224 putative CoA binding site [chemical binding]; other site 319224000225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224000226 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 319224000227 active site 319224000228 HPP family; Region: HPP; pfam04982 319224000229 Predicted acetyltransferase [General function prediction only]; Region: COG2388 319224000230 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 319224000231 active site 319224000232 Uncharacterized conserved protein [Function unknown]; Region: COG3791 319224000233 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 319224000234 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 319224000235 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 319224000236 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 319224000237 putative active site [active] 319224000238 catalytic site [active] 319224000239 putative metal binding site [ion binding]; other site 319224000240 Putative phosphatase (DUF442); Region: DUF442; cl17385 319224000241 Transcriptional regulators [Transcription]; Region: MarR; COG1846 319224000242 MarR family; Region: MarR_2; pfam12802 319224000243 MarR family; Region: MarR_2; cl17246 319224000244 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 319224000245 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 319224000246 FAD binding pocket [chemical binding]; other site 319224000247 FAD binding motif [chemical binding]; other site 319224000248 phosphate binding motif [ion binding]; other site 319224000249 NAD binding pocket [chemical binding]; other site 319224000250 imidazolonepropionase; Validated; Region: PRK09356 319224000251 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 319224000252 active site 319224000253 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 319224000254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224000255 DNA-binding site [nucleotide binding]; DNA binding site 319224000256 UTRA domain; Region: UTRA; pfam07702 319224000257 urocanate hydratase; Provisional; Region: PRK05414 319224000258 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 319224000259 active sites [active] 319224000260 tetramer interface [polypeptide binding]; other site 319224000261 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 319224000262 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 319224000263 putative catalytic cysteine [active] 319224000264 gamma-glutamyl kinase; Provisional; Region: PRK13402 319224000265 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 319224000266 nucleotide binding site [chemical binding]; other site 319224000267 homotetrameric interface [polypeptide binding]; other site 319224000268 putative phosphate binding site [ion binding]; other site 319224000269 putative allosteric binding site; other site 319224000270 PUA domain; Region: PUA; cl00607 319224000271 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 319224000272 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 319224000273 Na binding site [ion binding]; other site 319224000274 glutathione reductase; Validated; Region: PRK06116 319224000275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224000276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224000277 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319224000278 oligopeptidase A; Provisional; Region: PRK10911 319224000279 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 319224000280 active site 319224000281 Zn binding site [ion binding]; other site 319224000282 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 319224000283 active site 319224000284 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 319224000285 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 319224000286 C-terminal domain interface [polypeptide binding]; other site 319224000287 GSH binding site (G-site) [chemical binding]; other site 319224000288 dimer interface [polypeptide binding]; other site 319224000289 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 319224000290 N-terminal domain interface [polypeptide binding]; other site 319224000291 dimer interface [polypeptide binding]; other site 319224000292 substrate binding pocket (H-site) [chemical binding]; other site 319224000293 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 319224000294 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224000295 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224000296 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 319224000297 Protein export membrane protein; Region: SecD_SecF; cl14618 319224000298 AbgT putative transporter family; Region: ABG_transport; pfam03806 319224000299 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 319224000300 LemA family; Region: LemA; cl00742 319224000301 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 319224000302 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 319224000303 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224000304 catalytic residue [active] 319224000305 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 319224000306 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319224000307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224000308 metal binding site [ion binding]; metal-binding site 319224000309 active site 319224000310 I-site; other site 319224000311 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 319224000312 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224000313 S-adenosylmethionine binding site [chemical binding]; other site 319224000314 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224000315 Protein export membrane protein; Region: SecD_SecF; cl14618 319224000316 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224000317 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224000318 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224000319 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 319224000320 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 319224000321 N-terminal plug; other site 319224000322 ligand-binding site [chemical binding]; other site 319224000323 Peptidase family M48; Region: Peptidase_M48; cl12018 319224000324 Pilin (bacterial filament); Region: Pilin; pfam00114 319224000325 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 319224000326 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 319224000327 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224000328 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 319224000329 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 319224000330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224000331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224000332 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 319224000333 putative effector binding pocket; other site 319224000334 putative dimerization interface [polypeptide binding]; other site 319224000335 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 319224000336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224000337 NAD(P) binding site [chemical binding]; other site 319224000338 active site 319224000339 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 319224000340 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 319224000341 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 319224000342 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 319224000343 DsbD alpha interface [polypeptide binding]; other site 319224000344 catalytic residues [active] 319224000345 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 319224000346 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 319224000347 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 319224000348 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224000349 catalytic residues [active] 319224000350 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 319224000351 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319224000352 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319224000353 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 319224000354 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319224000355 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 319224000356 putative acyl-acceptor binding pocket; other site 319224000357 SnoaL-like domain; Region: SnoaL_3; pfam13474 319224000358 NRDE protein; Region: NRDE; cl01315 319224000359 Glycogen synthase [Carbohydrate transport and metabolism]; Region: GlgA; COG0297 319224000360 putative antibiotic transporter; Provisional; Region: PRK10739 319224000361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 319224000362 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 319224000363 Chorismate lyase; Region: Chor_lyase; cl01230 319224000364 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 319224000365 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 319224000366 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224000367 S-adenosylmethionine binding site [chemical binding]; other site 319224000368 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 319224000369 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 319224000370 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 319224000371 ATP binding site [chemical binding]; other site 319224000372 substrate interface [chemical binding]; other site 319224000373 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 319224000374 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 319224000375 dimer interface [polypeptide binding]; other site 319224000376 putative functional site; other site 319224000377 putative MPT binding site; other site 319224000378 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 319224000379 Ferritin-like domain; Region: Ferritin; pfam00210 319224000380 ferroxidase diiron center [ion binding]; other site 319224000381 Nitrate and nitrite sensing; Region: NIT; pfam08376 319224000382 HAMP domain; Region: HAMP; pfam00672 319224000383 dimerization interface [polypeptide binding]; other site 319224000384 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 319224000385 PAS domain; Region: PAS_9; pfam13426 319224000386 putative active site [active] 319224000387 heme pocket [chemical binding]; other site 319224000388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224000389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224000390 metal binding site [ion binding]; metal-binding site 319224000391 active site 319224000392 I-site; other site 319224000393 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 319224000394 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 319224000395 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 319224000396 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 319224000397 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224000398 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 319224000399 GIY-YIG motif/motif A; other site 319224000400 putative active site [active] 319224000401 putative metal binding site [ion binding]; other site 319224000402 Resistant to P. syringae 6; Provisional; Region: PLN03210 319224000403 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224000404 S-adenosylmethionine binding site [chemical binding]; other site 319224000405 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 319224000406 putative active site [active] 319224000407 Zn binding site [ion binding]; other site 319224000408 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 319224000409 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 319224000410 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 319224000411 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 319224000412 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 319224000413 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 319224000414 active site 319224000415 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 319224000416 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224000417 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224000418 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 319224000419 DNA binding site [nucleotide binding] 319224000420 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 319224000421 HsdM N-terminal domain; Region: HsdM_N; pfam12161 319224000422 HsdM N-terminal domain; Region: HsdM_N; pfam12161 319224000423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224000424 AAA domain; Region: AAA_21; pfam13304 319224000425 Walker A/P-loop; other site 319224000426 ATP binding site [chemical binding]; other site 319224000427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 319224000428 ABC transporter signature motif; other site 319224000429 Walker B; other site 319224000430 D-loop; other site 319224000431 H-loop/switch region; other site 319224000432 Protein of unknown function DUF45; Region: DUF45; pfam01863 319224000433 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 319224000434 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 319224000435 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 319224000436 ATP binding site [chemical binding]; other site 319224000437 putative Mg++ binding site [ion binding]; other site 319224000438 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 319224000439 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 319224000440 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 319224000441 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224000442 Zn2+ binding site [ion binding]; other site 319224000443 Mg2+ binding site [ion binding]; other site 319224000444 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 319224000445 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224000446 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 319224000447 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224000448 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 319224000449 HsdM N-terminal domain; Region: HsdM_N; pfam12161 319224000450 Methyltransferase domain; Region: Methyltransf_26; pfam13659 319224000451 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 319224000452 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 319224000453 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 319224000454 Walker A motif; other site 319224000455 ATP binding site [chemical binding]; other site 319224000456 Walker B motif; other site 319224000457 Integrase core domain; Region: rve; pfam00665 319224000458 multiple promoter invertase; Provisional; Region: mpi; PRK13413 319224000459 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 319224000460 catalytic residues [active] 319224000461 catalytic nucleophile [active] 319224000462 Presynaptic Site I dimer interface [polypeptide binding]; other site 319224000463 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319224000464 Synaptic Flat tetramer interface [polypeptide binding]; other site 319224000465 Synaptic Site I dimer interface [polypeptide binding]; other site 319224000466 DNA binding site [nucleotide binding] 319224000467 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 319224000468 DNA-binding interface [nucleotide binding]; DNA binding site 319224000469 putative mercuric reductase; Provisional; Region: PRK13748 319224000470 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 319224000471 metal-binding site [ion binding] 319224000472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224000473 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319224000474 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 319224000475 metal-binding site [ion binding] 319224000476 MerT mercuric transport protein; Region: MerT; pfam02411 319224000477 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 319224000478 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 319224000479 DNA binding residues [nucleotide binding] 319224000480 dimer interface [polypeptide binding]; other site 319224000481 mercury binding site [ion binding]; other site 319224000482 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 319224000483 active site 319224000484 putative transposase OrfB; Reviewed; Region: PHA02517 319224000485 HTH-like domain; Region: HTH_21; pfam13276 319224000486 Integrase core domain; Region: rve; pfam00665 319224000487 Integrase core domain; Region: rve_3; pfam13683 319224000488 Transposase; Region: HTH_Tnp_1; cl17663 319224000489 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 319224000490 Catalytic site [active] 319224000491 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 319224000492 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 319224000493 active site 319224000494 catalytic residues [active] 319224000495 DNA binding site [nucleotide binding] 319224000496 Int/Topo IB signature motif; other site 319224000497 Restriction endonuclease; Region: Mrr_cat; pfam04471 319224000498 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 319224000499 non-specific DNA binding site [nucleotide binding]; other site 319224000500 salt bridge; other site 319224000501 sequence-specific DNA binding site [nucleotide binding]; other site 319224000502 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 319224000503 Predicted transcriptional regulator [Transcription]; Region: COG3905 319224000504 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 319224000505 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319224000506 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319224000507 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 319224000508 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 319224000509 Ligand Binding Site [chemical binding]; other site 319224000510 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 319224000511 Ligand Binding Site [chemical binding]; other site 319224000512 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 319224000513 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 319224000514 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 319224000515 catalytic residues [active] 319224000516 catalytic nucleophile [active] 319224000517 Presynaptic Site I dimer interface [polypeptide binding]; other site 319224000518 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319224000519 Synaptic Flat tetramer interface [polypeptide binding]; other site 319224000520 Synaptic Site I dimer interface [polypeptide binding]; other site 319224000521 DNA binding site [nucleotide binding] 319224000522 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 319224000523 DNA-binding interface [nucleotide binding]; DNA binding site 319224000524 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 319224000525 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 319224000526 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 319224000527 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 319224000528 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 319224000529 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 319224000530 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 319224000531 DNA binding residues [nucleotide binding] 319224000532 dimer interface [polypeptide binding]; other site 319224000533 putative metal binding site [ion binding]; other site 319224000534 Heavy-metal-associated domain; Region: HMA; pfam00403 319224000535 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224000536 lipoprotein signal peptidase; Provisional; Region: PRK14776 319224000537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 319224000538 Transposase; Region: DDE_Tnp_ISL3; pfam01610 319224000539 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 319224000540 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 319224000541 putative active site [active] 319224000542 metal binding site [ion binding]; metal-binding site 319224000543 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 319224000544 putative catalytic cysteine [active] 319224000545 Domain of unknown function (DUF336); Region: DUF336; cl01249 319224000546 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 319224000547 Hexamer/Pentamer interface [polypeptide binding]; other site 319224000548 central pore; other site 319224000549 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 319224000550 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 319224000551 Propanediol utilisation protein PduL; Region: PduL; pfam06130 319224000552 Propanediol utilisation protein PduL; Region: PduL; pfam06130 319224000553 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 319224000554 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 319224000555 putative hexamer interface [polypeptide binding]; other site 319224000556 putative hexagonal pore; other site 319224000557 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 319224000558 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 319224000559 Hexamer interface [polypeptide binding]; other site 319224000560 Hexagonal pore residue; other site 319224000561 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 319224000562 amphipathic channel; other site 319224000563 Asn-Pro-Ala signature motifs; other site 319224000564 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 319224000565 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 319224000566 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 319224000567 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 319224000568 dimer interface [polypeptide binding]; other site 319224000569 active site 319224000570 glycine loop; other site 319224000571 propanediol utilization protein PduB; Provisional; Region: PRK15415 319224000572 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 319224000573 putative hexamer interface [polypeptide binding]; other site 319224000574 putative hexagonal pore; other site 319224000575 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 319224000576 putative hexamer interface [polypeptide binding]; other site 319224000577 putative hexagonal pore; other site 319224000578 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 319224000579 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 319224000580 Hexamer interface [polypeptide binding]; other site 319224000581 Putative hexagonal pore residue; other site 319224000582 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 319224000583 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 319224000584 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 319224000585 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 319224000586 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 319224000587 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 319224000588 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 319224000589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 319224000590 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 319224000591 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 319224000592 active site 319224000593 DNA binding site [nucleotide binding] 319224000594 Int/Topo IB signature motif; other site 319224000595 Homeodomain-like domain; Region: HTH_23; pfam13384 319224000596 Winged helix-turn helix; Region: HTH_29; pfam13551 319224000597 Homeodomain-like domain; Region: HTH_32; pfam13565 319224000598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 319224000599 DDE superfamily endonuclease; Region: DDE_3; pfam13358 319224000600 Sensory domain found in PocR; Region: PocR; pfam10114 319224000601 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 319224000602 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224000603 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 319224000604 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224000605 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 319224000606 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 319224000607 DNA binding residues [nucleotide binding] 319224000608 dimer interface [polypeptide binding]; other site 319224000609 putative metal binding site [ion binding]; other site 319224000610 Heavy-metal-associated domain; Region: HMA; pfam00403 319224000611 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224000612 lipoprotein signal peptidase; Provisional; Region: PRK14776 319224000613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 319224000614 Transposase; Region: DDE_Tnp_ISL3; pfam01610 319224000615 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 319224000616 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 319224000617 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 319224000618 carboxyltransferase (CT) interaction site; other site 319224000619 biotinylation site [posttranslational modification]; other site 319224000620 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224000621 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319224000622 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224000623 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 319224000624 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 319224000625 DNA binding residues [nucleotide binding] 319224000626 dimer interface [polypeptide binding]; other site 319224000627 putative metal binding site [ion binding]; other site 319224000628 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224000629 hypothetical protein; Provisional; Region: PRK02237 319224000630 Competence protein CoiA-like family; Region: CoiA; cl11541 319224000631 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 319224000632 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 319224000633 active site 319224000634 DNA binding site [nucleotide binding] 319224000635 Int/Topo IB signature motif; other site 319224000636 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224000637 Methyltransferase domain; Region: Methyltransf_27; pfam13708 319224000638 DDE superfamily endonuclease; Region: DDE_3; pfam13358 319224000639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 319224000640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 319224000641 Homeodomain-like domain; Region: HTH_23; pfam13384 319224000642 Winged helix-turn helix; Region: HTH_33; pfam13592 319224000643 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 319224000644 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 319224000645 Predicted metal-binding protein [General function prediction only]; Region: COG3019 319224000646 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 319224000647 Multicopper oxidase; Region: Cu-oxidase; pfam00394 319224000648 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 319224000649 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 319224000650 CopC domain; Region: CopC; pfam04234 319224000651 Copper resistance protein D; Region: CopD; cl00563 319224000652 SnoaL-like domain; Region: SnoaL_3; pfam13474 319224000653 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 319224000654 outer membrane porin, OprD family; Region: OprD; pfam03573 319224000655 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 319224000656 sensor kinase CusS; Provisional; Region: PRK09835 319224000657 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 319224000658 dimerization interface [polypeptide binding]; other site 319224000659 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 319224000660 dimer interface [polypeptide binding]; other site 319224000661 phosphorylation site [posttranslational modification] 319224000662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000663 ATP binding site [chemical binding]; other site 319224000664 Mg2+ binding site [ion binding]; other site 319224000665 G-X-G motif; other site 319224000666 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 319224000667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000668 active site 319224000669 phosphorylation site [posttranslational modification] 319224000670 intermolecular recognition site; other site 319224000671 dimerization interface [polypeptide binding]; other site 319224000672 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 319224000673 DNA binding site [nucleotide binding] 319224000674 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 319224000675 periplasmic copper-binding protein; Provisional; Region: PRK09838 319224000676 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 319224000677 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224000678 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 319224000679 Protein of unknown function, DUF; Region: DUF411; cl01142 319224000680 YHS domain; Region: YHS; pfam04945 319224000681 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 319224000682 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224000683 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 319224000684 motif II; other site 319224000685 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 319224000686 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224000687 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 319224000688 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319224000689 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 319224000690 metal-binding site [ion binding] 319224000691 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224000692 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319224000693 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 319224000694 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 319224000695 DNA binding residues [nucleotide binding] 319224000696 dimer interface [polypeptide binding]; other site 319224000697 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 319224000698 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 319224000699 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319224000700 putative active site [active] 319224000701 putative NTP binding site [chemical binding]; other site 319224000702 putative nucleic acid binding site [nucleotide binding]; other site 319224000703 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 319224000704 putative transposase OrfB; Reviewed; Region: PHA02517 319224000705 HTH-like domain; Region: HTH_21; pfam13276 319224000706 Integrase core domain; Region: rve; pfam00665 319224000707 Integrase core domain; Region: rve_3; pfam13683 319224000708 Transposase; Region: HTH_Tnp_1; cl17663 319224000709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 319224000710 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 319224000711 active site 319224000712 Int/Topo IB signature motif; other site 319224000713 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 319224000714 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224000715 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224000716 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 319224000717 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 319224000718 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 319224000719 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 319224000720 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224000721 S-adenosylmethionine binding site [chemical binding]; other site 319224000722 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 319224000723 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 319224000724 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 319224000725 P loop; other site 319224000726 GTP binding site [chemical binding]; other site 319224000727 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 319224000728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224000729 Walker A/P-loop; other site 319224000730 ATP binding site [chemical binding]; other site 319224000731 Q-loop/lid; other site 319224000732 ABC transporter signature motif; other site 319224000733 Walker B; other site 319224000734 D-loop; other site 319224000735 H-loop/switch region; other site 319224000736 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 319224000737 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 319224000738 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 319224000739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224000740 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 319224000741 DNA binding residues [nucleotide binding] 319224000742 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 319224000743 Fimbrial protein; Region: Fimbrial; cl01416 319224000744 Fimbrial protein; Region: Fimbrial; cl01416 319224000745 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 319224000746 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 319224000747 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 319224000748 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 319224000749 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 319224000750 PapC N-terminal domain; Region: PapC_N; pfam13954 319224000751 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 319224000752 PapC C-terminal domain; Region: PapC_C; pfam13953 319224000753 Fimbrial protein; Region: Fimbrial; cl01416 319224000754 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 319224000755 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 319224000756 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 319224000757 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 319224000758 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 319224000759 substrate binding pocket [chemical binding]; other site 319224000760 membrane-bound complex binding site; other site 319224000761 hinge residues; other site 319224000762 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 319224000763 substrate binding pocket [chemical binding]; other site 319224000764 membrane-bound complex binding site; other site 319224000765 hinge residues; other site 319224000766 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 319224000767 putative active site [active] 319224000768 heme pocket [chemical binding]; other site 319224000769 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 319224000770 dimer interface [polypeptide binding]; other site 319224000771 phosphorylation site [posttranslational modification] 319224000772 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000773 ATP binding site [chemical binding]; other site 319224000774 Mg2+ binding site [ion binding]; other site 319224000775 G-X-G motif; other site 319224000776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000777 active site 319224000778 phosphorylation site [posttranslational modification] 319224000779 intermolecular recognition site; other site 319224000780 dimerization interface [polypeptide binding]; other site 319224000781 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 319224000782 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 319224000783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000784 active site 319224000785 phosphorylation site [posttranslational modification] 319224000786 intermolecular recognition site; other site 319224000787 dimerization interface [polypeptide binding]; other site 319224000788 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 319224000789 DNA binding residues [nucleotide binding] 319224000790 dimerization interface [polypeptide binding]; other site 319224000791 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224000792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000793 active site 319224000794 phosphorylation site [posttranslational modification] 319224000795 intermolecular recognition site; other site 319224000796 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 319224000797 FimV N-terminal domain; Region: FimV_core; TIGR03505 319224000798 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 319224000799 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 319224000800 acyl-activating enzyme (AAE) consensus motif; other site 319224000801 putative AMP binding site [chemical binding]; other site 319224000802 putative active site [active] 319224000803 putative CoA binding site [chemical binding]; other site 319224000804 O-succinylbenzoate synthase; Provisional; Region: PRK05105 319224000805 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 319224000806 active site 319224000807 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 319224000808 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 319224000809 nucleophilic elbow; other site 319224000810 catalytic triad; other site 319224000811 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 319224000812 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 319224000813 dimer interface [polypeptide binding]; other site 319224000814 tetramer interface [polypeptide binding]; other site 319224000815 PYR/PP interface [polypeptide binding]; other site 319224000816 TPP binding site [chemical binding]; other site 319224000817 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 319224000818 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 319224000819 TPP-binding site; other site 319224000820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224000821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224000822 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 319224000823 dimerization interface [polypeptide binding]; other site 319224000824 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 319224000825 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319224000826 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 319224000827 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 319224000828 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 319224000829 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 319224000830 dimerization interface [polypeptide binding]; other site 319224000831 putative Zn2+ binding site [ion binding]; other site 319224000832 putative DNA binding site [nucleotide binding]; other site 319224000833 AsnC family; Region: AsnC_trans_reg; pfam01037 319224000834 Spore germination protein; Region: Spore_permease; cl17796 319224000835 putative transporter; Provisional; Region: PRK11021 319224000836 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 319224000837 putative metal binding site [ion binding]; other site 319224000838 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 319224000839 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 319224000840 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 319224000841 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319224000842 Sel1-like repeats; Region: SEL1; smart00671 319224000843 Cache domain; Region: Cache_1; pfam02743 319224000844 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224000845 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 319224000846 dimerization interface [polypeptide binding]; other site 319224000847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224000848 dimer interface [polypeptide binding]; other site 319224000849 putative CheW interface [polypeptide binding]; other site 319224000850 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 319224000851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224000852 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 319224000853 substrate binding pocket [chemical binding]; other site 319224000854 dimerization interface [polypeptide binding]; other site 319224000855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224000856 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 319224000857 putative substrate translocation pore; other site 319224000858 DTW domain; Region: DTW; cl01221 319224000859 PAS domain S-box; Region: sensory_box; TIGR00229 319224000860 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 319224000861 putative active site [active] 319224000862 heme pocket [chemical binding]; other site 319224000863 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224000864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224000865 metal binding site [ion binding]; metal-binding site 319224000866 active site 319224000867 I-site; other site 319224000868 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 319224000869 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319224000870 Methyltransferase domain; Region: Methyltransf_11; pfam08241 319224000871 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224000872 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 319224000873 N-terminal plug; other site 319224000874 ligand-binding site [chemical binding]; other site 319224000875 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 319224000876 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 319224000877 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 319224000878 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 319224000879 [4Fe-4S] binding site [ion binding]; other site 319224000880 molybdopterin cofactor binding site; other site 319224000881 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 319224000882 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 319224000883 molybdopterin cofactor binding site; other site 319224000884 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 319224000885 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 319224000886 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 319224000887 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 319224000888 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 319224000889 [4Fe-4S] binding site [ion binding]; other site 319224000890 molybdopterin cofactor binding site; other site 319224000891 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 319224000892 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 319224000893 molybdopterin cofactor binding site; other site 319224000894 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 319224000895 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 319224000896 Ferredoxin [Energy production and conversion]; Region: COG1146 319224000897 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 319224000898 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 319224000899 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 319224000900 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 319224000901 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 319224000902 Helix-turn-helix domain; Region: HTH_17; pfam12728 319224000903 PBP superfamily domain; Region: PBP_like; pfam12727 319224000904 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 319224000905 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 319224000906 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 319224000907 transmembrane helices; other site 319224000908 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 319224000909 Fumarase C-terminus; Region: Fumerase_C; pfam05683 319224000910 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 319224000911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000912 active site 319224000913 phosphorylation site [posttranslational modification] 319224000914 intermolecular recognition site; other site 319224000915 dimerization interface [polypeptide binding]; other site 319224000916 HTH domain; Region: HTH_11; pfam08279 319224000917 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 319224000918 PAS domain; Region: PAS; smart00091 319224000919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000920 ATP binding site [chemical binding]; other site 319224000921 Mg2+ binding site [ion binding]; other site 319224000922 G-X-G motif; other site 319224000923 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 319224000924 Iron-sulfur protein interface; other site 319224000925 proximal quinone binding site [chemical binding]; other site 319224000926 C-subunit interface; other site 319224000927 distal quinone binding site; other site 319224000928 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 319224000929 D-subunit interface [polypeptide binding]; other site 319224000930 Iron-sulfur protein interface; other site 319224000931 proximal quinone binding site [chemical binding]; other site 319224000932 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 319224000933 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 319224000934 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 319224000935 L-aspartate oxidase; Provisional; Region: PRK06175 319224000936 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319224000937 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224000938 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224000939 Coenzyme A binding pocket [chemical binding]; other site 319224000940 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224000941 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 319224000942 dimer interface [polypeptide binding]; other site 319224000943 phosphorylation site [posttranslational modification] 319224000944 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000945 ATP binding site [chemical binding]; other site 319224000946 Mg2+ binding site [ion binding]; other site 319224000947 G-X-G motif; other site 319224000948 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224000949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000950 active site 319224000951 phosphorylation site [posttranslational modification] 319224000952 intermolecular recognition site; other site 319224000953 dimerization interface [polypeptide binding]; other site 319224000954 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 319224000955 DNA binding site [nucleotide binding] 319224000956 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 319224000957 Dihaem cytochrome c; Region: DHC; pfam09626 319224000958 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 319224000959 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 319224000960 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 319224000961 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 319224000962 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 319224000963 NAD(P) binding site [chemical binding]; other site 319224000964 catalytic residues [active] 319224000965 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 319224000966 GAF domain; Region: GAF; pfam01590 319224000967 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 319224000968 Walker A motif; other site 319224000969 ATP binding site [chemical binding]; other site 319224000970 Walker B motif; other site 319224000971 arginine finger; other site 319224000972 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224000973 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 319224000974 dimerization interface [polypeptide binding]; other site 319224000975 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 319224000976 dimer interface [polypeptide binding]; other site 319224000977 phosphorylation site [posttranslational modification] 319224000978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224000979 ATP binding site [chemical binding]; other site 319224000980 Mg2+ binding site [ion binding]; other site 319224000981 G-X-G motif; other site 319224000982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000983 active site 319224000984 phosphorylation site [posttranslational modification] 319224000985 intermolecular recognition site; other site 319224000986 dimerization interface [polypeptide binding]; other site 319224000987 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 319224000988 DNA binding site [nucleotide binding] 319224000989 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 319224000990 dimer interface [polypeptide binding]; other site 319224000991 Cation efflux family; Region: Cation_efflux; cl00316 319224000992 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 319224000993 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 319224000994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224000995 active site 319224000996 phosphorylation site [posttranslational modification] 319224000997 intermolecular recognition site; other site 319224000998 dimerization interface [polypeptide binding]; other site 319224000999 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 319224001000 Walker A motif; other site 319224001001 ATP binding site [chemical binding]; other site 319224001002 Walker B motif; other site 319224001003 arginine finger; other site 319224001004 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224001005 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 319224001006 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 319224001007 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 319224001008 dimer interface [polypeptide binding]; other site 319224001009 phosphorylation site [posttranslational modification] 319224001010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001011 ATP binding site [chemical binding]; other site 319224001012 Mg2+ binding site [ion binding]; other site 319224001013 G-X-G motif; other site 319224001014 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 319224001015 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 319224001016 N-terminal domain interface [polypeptide binding]; other site 319224001017 dimer interface [polypeptide binding]; other site 319224001018 substrate binding pocket (H-site) [chemical binding]; other site 319224001019 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 319224001020 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 319224001021 putative C-terminal domain interface [polypeptide binding]; other site 319224001022 putative GSH binding site (G-site) [chemical binding]; other site 319224001023 putative dimer interface [polypeptide binding]; other site 319224001024 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 319224001025 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 319224001026 potential catalytic triad [active] 319224001027 conserved cys residue [active] 319224001028 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 319224001029 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 319224001030 dimer interface [polypeptide binding]; other site 319224001031 active site 319224001032 metal binding site [ion binding]; metal-binding site 319224001033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224001034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224001035 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 319224001036 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224001037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224001038 dimer interface [polypeptide binding]; other site 319224001039 putative CheW interface [polypeptide binding]; other site 319224001040 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 319224001041 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 319224001042 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224001043 S-adenosylmethionine binding site [chemical binding]; other site 319224001044 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 319224001045 substrate binding site [chemical binding]; other site 319224001046 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319224001047 ATP binding site [chemical binding]; other site 319224001048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224001049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224001050 metal binding site [ion binding]; metal-binding site 319224001051 active site 319224001052 I-site; other site 319224001053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 319224001054 MOSC domain; Region: MOSC; pfam03473 319224001055 3-alpha domain; Region: 3-alpha; pfam03475 319224001056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 319224001057 Cache domain; Region: Cache_1; pfam02743 319224001058 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 319224001059 dimerization interface [polypeptide binding]; other site 319224001060 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224001061 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224001062 dimer interface [polypeptide binding]; other site 319224001063 putative CheW interface [polypeptide binding]; other site 319224001064 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 319224001065 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319224001066 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 319224001067 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 319224001068 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 319224001069 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 319224001070 FeS/SAM binding site; other site 319224001071 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 319224001072 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 319224001073 trimer interface [polypeptide binding]; other site 319224001074 dimer interface [polypeptide binding]; other site 319224001075 putative active site [active] 319224001076 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 319224001077 MoaE interaction surface [polypeptide binding]; other site 319224001078 MoeB interaction surface [polypeptide binding]; other site 319224001079 thiocarboxylated glycine; other site 319224001080 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 319224001081 MoaE homodimer interface [polypeptide binding]; other site 319224001082 MoaD interaction [polypeptide binding]; other site 319224001083 active site residues [active] 319224001084 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319224001085 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 319224001086 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319224001087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224001088 dimer interface [polypeptide binding]; other site 319224001089 conserved gate region; other site 319224001090 putative PBP binding loops; other site 319224001091 ABC-ATPase subunit interface; other site 319224001092 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 319224001093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224001094 Walker A/P-loop; other site 319224001095 ATP binding site [chemical binding]; other site 319224001096 Q-loop/lid; other site 319224001097 ABC transporter signature motif; other site 319224001098 Walker B; other site 319224001099 D-loop; other site 319224001100 H-loop/switch region; other site 319224001101 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 319224001102 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224001103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001104 active site 319224001105 phosphorylation site [posttranslational modification] 319224001106 intermolecular recognition site; other site 319224001107 dimerization interface [polypeptide binding]; other site 319224001108 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 319224001109 DNA binding site [nucleotide binding] 319224001110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224001111 HAMP domain; Region: HAMP; pfam00672 319224001112 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 319224001113 dimer interface [polypeptide binding]; other site 319224001114 phosphorylation site [posttranslational modification] 319224001115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001116 ATP binding site [chemical binding]; other site 319224001117 Mg2+ binding site [ion binding]; other site 319224001118 G-X-G motif; other site 319224001119 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224001120 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224001121 active site 319224001122 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 319224001123 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224001124 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 319224001125 N-terminal plug; other site 319224001126 ligand-binding site [chemical binding]; other site 319224001127 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 319224001128 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224001129 CHAP domain; Region: CHAP; pfam05257 319224001130 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 319224001131 kynureninase; Region: kynureninase; TIGR01814 319224001132 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 319224001133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224001134 catalytic residue [active] 319224001135 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 319224001136 glutamine synthetase; Provisional; Region: glnA; PRK09469 319224001137 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 319224001138 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 319224001139 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 319224001140 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 319224001141 G1 box; other site 319224001142 putative GEF interaction site [polypeptide binding]; other site 319224001143 GTP/Mg2+ binding site [chemical binding]; other site 319224001144 Switch I region; other site 319224001145 G2 box; other site 319224001146 G3 box; other site 319224001147 Switch II region; other site 319224001148 G4 box; other site 319224001149 G5 box; other site 319224001150 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 319224001151 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 319224001152 SnoaL-like domain; Region: SnoaL_3; pfam13474 319224001153 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224001154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224001155 metal binding site [ion binding]; metal-binding site 319224001156 active site 319224001157 I-site; other site 319224001158 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 319224001159 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 319224001160 dimer interface [polypeptide binding]; other site 319224001161 active site 319224001162 heme binding site [chemical binding]; other site 319224001163 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 319224001164 4Fe-4S binding domain; Region: Fer4_5; pfam12801 319224001165 4Fe-4S binding domain; Region: Fer4_5; pfam12801 319224001166 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 319224001167 hypothetical protein; Reviewed; Region: PRK01637 319224001168 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 319224001169 putative active site [active] 319224001170 dimerization interface [polypeptide binding]; other site 319224001171 putative tRNAtyr binding site [nucleotide binding]; other site 319224001172 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 319224001173 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 319224001174 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319224001175 azoreductase; Reviewed; Region: PRK00170 319224001176 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 319224001177 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319224001178 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 319224001179 non-specific DNA binding site [nucleotide binding]; other site 319224001180 salt bridge; other site 319224001181 sequence-specific DNA binding site [nucleotide binding]; other site 319224001182 Cupin domain; Region: Cupin_2; pfam07883 319224001183 Benzoate membrane transport protein; Region: BenE; pfam03594 319224001184 benzoate transporter; Region: benE; TIGR00843 319224001185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224001186 Coenzyme A binding pocket [chemical binding]; other site 319224001187 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 319224001188 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 319224001189 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 319224001190 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 319224001191 dimer interface [polypeptide binding]; other site 319224001192 active site 319224001193 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 319224001194 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 319224001195 NAD(P) binding site [chemical binding]; other site 319224001196 homotetramer interface [polypeptide binding]; other site 319224001197 homodimer interface [polypeptide binding]; other site 319224001198 active site 319224001199 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 319224001200 putative active site 1 [active] 319224001201 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 319224001202 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 319224001203 dimer interface [polypeptide binding]; other site 319224001204 active site 319224001205 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 319224001206 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 319224001207 Predicted exporter [General function prediction only]; Region: COG4258 319224001208 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 319224001209 active site 319224001210 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 319224001211 active sites [active] 319224001212 tetramer interface [polypeptide binding]; other site 319224001213 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319224001214 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 319224001215 Ligand binding site; other site 319224001216 Putative Catalytic site; other site 319224001217 DXD motif; other site 319224001218 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 319224001219 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 319224001220 putative acyl-acceptor binding pocket; other site 319224001221 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 319224001222 active site 2 [active] 319224001223 active site 1 [active] 319224001224 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 319224001225 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319224001226 acyl-activating enzyme (AAE) consensus motif; other site 319224001227 AMP binding site [chemical binding]; other site 319224001228 active site 319224001229 CoA binding site [chemical binding]; other site 319224001230 Predicted membrane protein [Function unknown]; Region: COG4648 319224001231 acyl carrier protein; Provisional; Region: PRK05350 319224001232 Phosphopantetheine attachment site; Region: PP-binding; cl09936 319224001233 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319224001234 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319224001235 putative acyl-acceptor binding pocket; other site 319224001236 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 319224001237 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 319224001238 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 319224001239 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 319224001240 generic binding surface II; other site 319224001241 ssDNA binding site; other site 319224001242 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 319224001243 ATP binding site [chemical binding]; other site 319224001244 putative Mg++ binding site [ion binding]; other site 319224001245 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 319224001246 nucleotide binding region [chemical binding]; other site 319224001247 ATP-binding site [chemical binding]; other site 319224001248 inner membrane protein; Provisional; Region: PRK10995 319224001249 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224001250 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319224001251 ligand binding site [chemical binding]; other site 319224001252 hypothetical protein; Provisional; Region: PRK11820 319224001253 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 319224001254 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 319224001255 ribonuclease PH; Reviewed; Region: rph; PRK00173 319224001256 Ribonuclease PH; Region: RNase_PH_bact; cd11362 319224001257 hexamer interface [polypeptide binding]; other site 319224001258 active site 319224001259 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224001260 active site 319224001261 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 319224001262 GTP cyclohydrolase I; Provisional; Region: PLN03044 319224001263 active site 319224001264 division inhibitor protein; Provisional; Region: slmA; PRK09480 319224001265 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224001266 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 319224001267 trimer interface [polypeptide binding]; other site 319224001268 active site 319224001269 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 319224001270 Flavoprotein; Region: Flavoprotein; pfam02441 319224001271 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 319224001272 hypothetical protein; Reviewed; Region: PRK00024 319224001273 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 319224001274 MPN+ (JAMM) motif; other site 319224001275 Zinc-binding site [ion binding]; other site 319224001276 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 319224001277 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 319224001278 N-acetylglutamate synthase; Validated; Region: PRK05279 319224001279 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 319224001280 putative feedback inhibition sensing region; other site 319224001281 putative nucleotide binding site [chemical binding]; other site 319224001282 putative substrate binding site [chemical binding]; other site 319224001283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224001284 Coenzyme A binding pocket [chemical binding]; other site 319224001285 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 319224001286 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 319224001287 CoenzymeA binding site [chemical binding]; other site 319224001288 subunit interaction site [polypeptide binding]; other site 319224001289 PHB binding site; other site 319224001290 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 319224001291 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 319224001292 ATP binding site [chemical binding]; other site 319224001293 putative Mg++ binding site [ion binding]; other site 319224001294 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 319224001295 nucleotide binding region [chemical binding]; other site 319224001296 ATP-binding site [chemical binding]; other site 319224001297 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 319224001298 HRDC domain; Region: HRDC; pfam00570 319224001299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224001300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224001301 active site 319224001302 I-site; other site 319224001303 metal binding site [ion binding]; metal-binding site 319224001304 2-isopropylmalate synthase; Validated; Region: PRK00915 319224001305 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 319224001306 active site 319224001307 catalytic residues [active] 319224001308 metal binding site [ion binding]; metal-binding site 319224001309 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 319224001310 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 319224001311 tartrate dehydrogenase; Region: TTC; TIGR02089 319224001312 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 319224001313 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 319224001314 substrate binding site [chemical binding]; other site 319224001315 ligand binding site [chemical binding]; other site 319224001316 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 319224001317 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 319224001318 substrate binding site [chemical binding]; other site 319224001319 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 319224001320 glycerol kinase; Provisional; Region: glpK; PRK00047 319224001321 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 319224001322 N- and C-terminal domain interface [polypeptide binding]; other site 319224001323 active site 319224001324 MgATP binding site [chemical binding]; other site 319224001325 catalytic site [active] 319224001326 metal binding site [ion binding]; metal-binding site 319224001327 glycerol binding site [chemical binding]; other site 319224001328 homotetramer interface [polypeptide binding]; other site 319224001329 homodimer interface [polypeptide binding]; other site 319224001330 FBP binding site [chemical binding]; other site 319224001331 protein IIAGlc interface [polypeptide binding]; other site 319224001332 cell division protein MraZ; Reviewed; Region: PRK00326 319224001333 MraZ protein; Region: MraZ; pfam02381 319224001334 MraZ protein; Region: MraZ; pfam02381 319224001335 MraW methylase family; Region: Methyltransf_5; pfam01795 319224001336 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 319224001337 Cell division protein FtsL; Region: FtsL; pfam04999 319224001338 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 319224001339 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 319224001340 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 319224001341 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 319224001342 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319224001343 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319224001344 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319224001345 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 319224001346 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319224001347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319224001348 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319224001349 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 319224001350 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 319224001351 Mg++ binding site [ion binding]; other site 319224001352 putative catalytic motif [active] 319224001353 putative substrate binding site [chemical binding]; other site 319224001354 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 319224001355 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319224001356 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 319224001357 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 319224001358 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 319224001359 active site 319224001360 homodimer interface [polypeptide binding]; other site 319224001361 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 319224001362 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319224001363 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319224001364 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319224001365 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 319224001366 Cell division protein FtsQ; Region: FtsQ; pfam03799 319224001367 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 319224001368 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 319224001369 nucleotide binding site [chemical binding]; other site 319224001370 Cell division protein FtsA; Region: FtsA; pfam14450 319224001371 cell division protein FtsZ; Validated; Region: PRK09330 319224001372 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 319224001373 nucleotide binding site [chemical binding]; other site 319224001374 SulA interaction site; other site 319224001375 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 319224001376 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 319224001377 Protein of unknown function (DUF721); Region: DUF721; cl02324 319224001378 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 319224001379 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224001380 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 319224001381 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 319224001382 ATP binding site [chemical binding]; other site 319224001383 putative Mg++ binding site [ion binding]; other site 319224001384 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 319224001385 SEC-C motif; Region: SEC-C; pfam02810 319224001386 DDE superfamily endonuclease; Region: DDE_3; pfam13358 319224001387 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 319224001388 dimer interface [polypeptide binding]; other site 319224001389 allosteric magnesium binding site [ion binding]; other site 319224001390 active site 319224001391 aspartate-rich active site metal binding site; other site 319224001392 Schiff base residues; other site 319224001393 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319224001394 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319224001395 hypothetical protein; Region: PHA02277 319224001396 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224001397 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224001398 metal binding site [ion binding]; metal-binding site 319224001399 active site 319224001400 I-site; other site 319224001401 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 319224001402 active site 319224001403 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 319224001404 sec-independent translocase; Provisional; Region: PRK01770 319224001405 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 319224001406 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 319224001407 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 319224001408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 319224001409 SCP-2 sterol transfer family; Region: SCP2; pfam02036 319224001410 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 319224001411 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224001412 S-adenosylmethionine binding site [chemical binding]; other site 319224001413 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 319224001414 putative active site [active] 319224001415 putative metal binding site [ion binding]; other site 319224001416 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 319224001417 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 319224001418 PAP2 superfamily; Region: PAP2; pfam01569 319224001419 active site 319224001420 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 319224001421 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 319224001422 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224001423 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224001424 dimer interface [polypeptide binding]; other site 319224001425 putative CheW interface [polypeptide binding]; other site 319224001426 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319224001427 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 319224001428 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 319224001429 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 319224001430 DHHA2 domain; Region: DHHA2; pfam02833 319224001431 Domain of unknown function (DUF386); Region: DUF386; cl01047 319224001432 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224001433 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 319224001434 N-terminal plug; other site 319224001435 ligand-binding site [chemical binding]; other site 319224001436 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 319224001437 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224001438 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 319224001439 probable active site [active] 319224001440 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001441 ATP binding site [chemical binding]; other site 319224001442 Mg2+ binding site [ion binding]; other site 319224001443 G-X-G motif; other site 319224001444 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 319224001445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001446 active site 319224001447 phosphorylation site [posttranslational modification] 319224001448 intermolecular recognition site; other site 319224001449 dimerization interface [polypeptide binding]; other site 319224001450 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224001451 C factor cell-cell signaling protein; Provisional; Region: PRK09009 319224001452 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 319224001453 NADP binding site [chemical binding]; other site 319224001454 homodimer interface [polypeptide binding]; other site 319224001455 active site 319224001456 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 319224001457 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 319224001458 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 319224001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 319224001460 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 319224001461 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 319224001462 Walker A motif; other site 319224001463 ATP binding site [chemical binding]; other site 319224001464 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 319224001465 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 319224001466 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 319224001467 active site 319224001468 HslU subunit interaction site [polypeptide binding]; other site 319224001469 RibD C-terminal domain; Region: RibD_C; cl17279 319224001470 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 319224001471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001472 active site 319224001473 phosphorylation site [posttranslational modification] 319224001474 intermolecular recognition site; other site 319224001475 dimerization interface [polypeptide binding]; other site 319224001476 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 319224001477 DNA binding residues [nucleotide binding] 319224001478 dimerization interface [polypeptide binding]; other site 319224001479 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 319224001480 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 319224001481 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001482 ATP binding site [chemical binding]; other site 319224001483 Mg2+ binding site [ion binding]; other site 319224001484 G-X-G motif; other site 319224001485 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 319224001486 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 319224001487 substrate binding pocket [chemical binding]; other site 319224001488 membrane-bound complex binding site; other site 319224001489 hinge residues; other site 319224001490 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319224001491 Sel1-like repeats; Region: SEL1; smart00671 319224001492 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319224001493 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319224001494 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 319224001495 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 319224001496 dimer interface [polypeptide binding]; other site 319224001497 active site 319224001498 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319224001499 catalytic residues [active] 319224001500 substrate binding site [chemical binding]; other site 319224001501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 319224001502 uridine phosphorylase; Provisional; Region: PRK11178 319224001503 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 319224001504 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 319224001505 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 319224001506 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 319224001507 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 319224001508 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 319224001509 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 319224001510 Sporulation related domain; Region: SPOR; pfam05036 319224001511 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 319224001512 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 319224001513 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 319224001514 active site 319224001515 HIGH motif; other site 319224001516 KMSK motif region; other site 319224001517 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 319224001518 tRNA binding surface [nucleotide binding]; other site 319224001519 anticodon binding site; other site 319224001520 primosome assembly protein PriA; Validated; Region: PRK05580 319224001521 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 319224001522 ATP binding site [chemical binding]; other site 319224001523 putative Mg++ binding site [ion binding]; other site 319224001524 helicase superfamily c-terminal domain; Region: HELICc; smart00490 319224001525 FimV N-terminal domain; Region: FimV_core; TIGR03505 319224001526 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 319224001527 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 319224001528 Malic enzyme, N-terminal domain; Region: malic; pfam00390 319224001529 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 319224001530 putative NAD(P) binding site [chemical binding]; other site 319224001531 regulatory protein CsrD; Provisional; Region: PRK11059 319224001532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224001533 metal binding site [ion binding]; metal-binding site 319224001534 active site 319224001535 I-site; other site 319224001536 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 319224001537 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 319224001538 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 319224001539 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 319224001540 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 319224001541 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319224001542 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 319224001543 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 319224001544 Walker A motif; other site 319224001545 ATP binding site [chemical binding]; other site 319224001546 Walker B motif; other site 319224001547 arginine finger; other site 319224001548 TPR repeat; Region: TPR_11; pfam13414 319224001549 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 319224001550 TPR motif; other site 319224001551 binding surface 319224001552 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 319224001553 binding surface 319224001554 TPR motif; other site 319224001555 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 319224001556 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 319224001557 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 319224001558 Walker A motif; other site 319224001559 ATP binding site [chemical binding]; other site 319224001560 Walker B motif; other site 319224001561 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 319224001562 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319224001563 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319224001564 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 319224001565 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 319224001566 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 319224001567 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 319224001568 legume lectins; Region: lectin_L-type; cl14058 319224001569 homotetramer interaction site [polypeptide binding]; other site 319224001570 homodimer interaction site [polypeptide binding]; other site 319224001571 carbohydrate binding site [chemical binding]; other site 319224001572 metal binding site [ion binding]; metal-binding site 319224001573 rod shape-determining protein MreB; Provisional; Region: PRK13927 319224001574 MreB and similar proteins; Region: MreB_like; cd10225 319224001575 nucleotide binding site [chemical binding]; other site 319224001576 Mg binding site [ion binding]; other site 319224001577 putative protofilament interaction site [polypeptide binding]; other site 319224001578 RodZ interaction site [polypeptide binding]; other site 319224001579 rod shape-determining protein MreC; Region: mreC; TIGR00219 319224001580 rod shape-determining protein MreC; Region: MreC; pfam04085 319224001581 rod shape-determining protein MreD; Region: MreD; cl01087 319224001582 Maf-like protein; Region: Maf; pfam02545 319224001583 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 319224001584 active site 319224001585 dimer interface [polypeptide binding]; other site 319224001586 ribonuclease G; Provisional; Region: PRK11712 319224001587 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 319224001588 homodimer interface [polypeptide binding]; other site 319224001589 oligonucleotide binding site [chemical binding]; other site 319224001590 TIGR02099 family protein; Region: TIGR02099 319224001591 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 319224001592 nitrilase; Region: PLN02798 319224001593 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 319224001594 putative active site [active] 319224001595 catalytic triad [active] 319224001596 dimer interface [polypeptide binding]; other site 319224001597 protease TldD; Provisional; Region: tldD; PRK10735 319224001598 Outer membrane efflux protein; Region: OEP; pfam02321 319224001599 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319224001600 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224001601 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 319224001602 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224001603 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 319224001604 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 319224001605 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 319224001606 ABC-2 type transporter; Region: ABC2_membrane; cl17235 319224001607 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 319224001608 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 319224001609 Ion transport protein; Region: Ion_trans; pfam00520 319224001610 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 319224001611 hydroperoxidase II; Provisional; Region: katE; PRK11249 319224001612 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 319224001613 tetramer interface [polypeptide binding]; other site 319224001614 heme binding pocket [chemical binding]; other site 319224001615 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 319224001616 domain interactions; other site 319224001617 MgtC family; Region: MgtC; pfam02308 319224001618 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 319224001619 hypothetical protein; Provisional; Region: PRK05255 319224001620 peptidase PmbA; Provisional; Region: PRK11040 319224001621 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 319224001622 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 319224001623 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 319224001624 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 319224001625 substrate binding pocket [chemical binding]; other site 319224001626 membrane-bound complex binding site; other site 319224001627 Domain of unknown function; Region: DUF331; pfam03889 319224001628 fumarate hydratase; Reviewed; Region: fumC; PRK00485 319224001629 Class II fumarases; Region: Fumarase_classII; cd01362 319224001630 active site 319224001631 tetramer interface [polypeptide binding]; other site 319224001632 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 319224001633 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319224001634 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 319224001635 FeS/SAM binding site; other site 319224001636 Uncharacterized conserved protein [Function unknown]; Region: COG2968 319224001637 oxidative stress defense protein; Provisional; Region: PRK11087 319224001638 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 319224001639 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319224001640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224001641 S-adenosylmethionine binding site [chemical binding]; other site 319224001642 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 319224001643 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 319224001644 N-terminal plug; other site 319224001645 ligand-binding site [chemical binding]; other site 319224001646 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 319224001647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224001648 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 319224001649 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 319224001650 ATP binding site [chemical binding]; other site 319224001651 active site 319224001652 substrate binding site [chemical binding]; other site 319224001653 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 319224001654 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319224001655 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 319224001656 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 319224001657 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 319224001658 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319224001659 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 319224001660 dimerization interface [polypeptide binding]; other site 319224001661 DNA binding site [nucleotide binding] 319224001662 corepressor binding sites; other site 319224001663 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 319224001664 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 319224001665 homodimer interface [polypeptide binding]; other site 319224001666 substrate-cofactor binding pocket; other site 319224001667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224001668 catalytic residue [active] 319224001669 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 319224001670 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 319224001671 nucleotide binding site [chemical binding]; other site 319224001672 substrate binding site [chemical binding]; other site 319224001673 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 319224001674 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 319224001675 FAD binding site [chemical binding]; other site 319224001676 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 319224001677 dimerization interface [polypeptide binding]; other site 319224001678 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224001679 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224001680 dimer interface [polypeptide binding]; other site 319224001681 putative CheW interface [polypeptide binding]; other site 319224001682 transcriptional regulator SlyA; Provisional; Region: PRK03573 319224001683 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 319224001684 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 319224001685 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224001686 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224001687 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 319224001688 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 319224001689 Cytochrome c; Region: Cytochrom_C; cl11414 319224001690 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 319224001691 Cytochrome c; Region: Cytochrom_C; cl11414 319224001692 Cytochrome c [Energy production and conversion]; Region: COG3258 319224001693 Cytochrome c; Region: Cytochrom_C; pfam00034 319224001694 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 319224001695 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 319224001696 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 319224001697 putative [Fe4-S4] binding site [ion binding]; other site 319224001698 putative molybdopterin cofactor binding site [chemical binding]; other site 319224001699 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 319224001700 putative molybdopterin cofactor binding site; other site 319224001701 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 319224001702 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 319224001703 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 319224001704 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 319224001705 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 319224001706 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 319224001707 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 319224001708 EamA-like transporter family; Region: EamA; pfam00892 319224001709 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319224001710 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 319224001711 active site 319224001712 motif I; other site 319224001713 motif II; other site 319224001714 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 319224001715 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 319224001716 ATP binding site [chemical binding]; other site 319224001717 Mg++ binding site [ion binding]; other site 319224001718 motif III; other site 319224001719 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 319224001720 nucleotide binding region [chemical binding]; other site 319224001721 ATP-binding site [chemical binding]; other site 319224001722 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 319224001723 putative RNA binding site [nucleotide binding]; other site 319224001724 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 319224001725 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 319224001726 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 319224001727 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 319224001728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224001729 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224001730 putative substrate translocation pore; other site 319224001731 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 319224001732 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 319224001733 dimer interface [polypeptide binding]; other site 319224001734 ssDNA binding site [nucleotide binding]; other site 319224001735 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319224001736 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 319224001737 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 319224001738 glutamine binding [chemical binding]; other site 319224001739 catalytic triad [active] 319224001740 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 319224001741 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224001742 HDOD domain; Region: HDOD; pfam08668 319224001743 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 319224001744 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 319224001745 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 319224001746 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 319224001747 inhibitor-cofactor binding pocket; inhibition site 319224001748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224001749 catalytic residue [active] 319224001750 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 319224001751 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 319224001752 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 319224001753 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 319224001754 NAD(P) binding site [chemical binding]; other site 319224001755 catalytic residues [active] 319224001756 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 319224001757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224001758 HAMP domain; Region: HAMP; pfam00672 319224001759 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 319224001760 dimer interface [polypeptide binding]; other site 319224001761 phosphorylation site [posttranslational modification] 319224001762 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001763 ATP binding site [chemical binding]; other site 319224001764 Mg2+ binding site [ion binding]; other site 319224001765 G-X-G motif; other site 319224001766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224001767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001768 active site 319224001769 phosphorylation site [posttranslational modification] 319224001770 intermolecular recognition site; other site 319224001771 dimerization interface [polypeptide binding]; other site 319224001772 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 319224001773 DNA binding site [nucleotide binding] 319224001774 Predicted membrane protein [Function unknown]; Region: COG3212 319224001775 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 319224001776 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 319224001777 ligand binding site [chemical binding]; other site 319224001778 flexible hinge region; other site 319224001779 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 319224001780 putative switch regulator; other site 319224001781 non-specific DNA interactions [nucleotide binding]; other site 319224001782 DNA binding site [nucleotide binding] 319224001783 sequence specific DNA binding site [nucleotide binding]; other site 319224001784 putative cAMP binding site [chemical binding]; other site 319224001785 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319224001786 Sel1-like repeats; Region: SEL1; smart00671 319224001787 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 319224001788 binding surface 319224001789 TPR motif; other site 319224001790 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224001791 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224001792 metal binding site [ion binding]; metal-binding site 319224001793 active site 319224001794 I-site; other site 319224001795 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 319224001796 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 319224001797 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 319224001798 ATP binding site [chemical binding]; other site 319224001799 putative Mg++ binding site [ion binding]; other site 319224001800 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 319224001801 nucleotide binding region [chemical binding]; other site 319224001802 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 319224001803 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 319224001804 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 319224001805 Transglycosylase; Region: Transgly; pfam00912 319224001806 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 319224001807 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 319224001808 Putative integral membrane protein (DUF2391); Region: DUF2391; cl01935 319224001809 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 319224001810 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 319224001811 PAS domain; Region: PAS_9; pfam13426 319224001812 putative active site [active] 319224001813 heme pocket [chemical binding]; other site 319224001814 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 319224001815 PAS domain; Region: PAS_9; pfam13426 319224001816 putative active site [active] 319224001817 heme pocket [chemical binding]; other site 319224001818 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224001819 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224001820 dimer interface [polypeptide binding]; other site 319224001821 putative CheW interface [polypeptide binding]; other site 319224001822 tetrathionate reductase subunit A; Provisional; Region: PRK14991 319224001823 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 319224001824 molybdopterin cofactor binding site; other site 319224001825 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 319224001826 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 319224001827 putative molybdopterin cofactor binding site; other site 319224001828 tetrathionate reductase subunit C; Provisional; Region: PRK14992 319224001829 tetrathionate reductase subunit B; Provisional; Region: PRK14993 319224001830 4Fe-4S binding domain; Region: Fer4; pfam00037 319224001831 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 319224001832 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 319224001833 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224001834 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 319224001835 dimer interface [polypeptide binding]; other site 319224001836 phosphorylation site [posttranslational modification] 319224001837 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001838 ATP binding site [chemical binding]; other site 319224001839 Mg2+ binding site [ion binding]; other site 319224001840 G-X-G motif; other site 319224001841 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 319224001842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001843 active site 319224001844 phosphorylation site [posttranslational modification] 319224001845 intermolecular recognition site; other site 319224001846 dimerization interface [polypeptide binding]; other site 319224001847 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 319224001848 DNA binding residues [nucleotide binding] 319224001849 dimerization interface [polypeptide binding]; other site 319224001850 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 319224001851 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 319224001852 active site 319224001853 metal binding site [ion binding]; metal-binding site 319224001854 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 319224001855 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 319224001856 Cache domain; Region: Cache_2; pfam08269 319224001857 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224001858 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224001859 dimer interface [polypeptide binding]; other site 319224001860 putative CheW interface [polypeptide binding]; other site 319224001861 hypothetical protein; Provisional; Region: PRK05208 319224001862 BON domain; Region: BON; pfam04972 319224001863 Nuclease-related domain; Region: NERD; pfam08378 319224001864 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 319224001865 AMP binding site [chemical binding]; other site 319224001866 metal binding site [ion binding]; metal-binding site 319224001867 active site 319224001868 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 319224001869 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224001870 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 319224001871 two-component response regulator; Provisional; Region: PRK11173 319224001872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001873 active site 319224001874 phosphorylation site [posttranslational modification] 319224001875 intermolecular recognition site; other site 319224001876 dimerization interface [polypeptide binding]; other site 319224001877 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 319224001878 DNA binding site [nucleotide binding] 319224001879 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 319224001880 aspartate kinase III; Validated; Region: PRK09084 319224001881 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 319224001882 nucleotide binding site [chemical binding]; other site 319224001883 substrate binding site [chemical binding]; other site 319224001884 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 319224001885 dimer interface [polypeptide binding]; other site 319224001886 allosteric regulatory binding pocket; other site 319224001887 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 319224001888 dimer interface [polypeptide binding]; other site 319224001889 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 319224001890 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 319224001891 Cl binding site [ion binding]; other site 319224001892 oligomer interface [polypeptide binding]; other site 319224001893 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 319224001894 transcriptional regulator NarL; Provisional; Region: PRK10651 319224001895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224001896 active site 319224001897 phosphorylation site [posttranslational modification] 319224001898 intermolecular recognition site; other site 319224001899 dimerization interface [polypeptide binding]; other site 319224001900 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 319224001901 DNA binding residues [nucleotide binding] 319224001902 dimerization interface [polypeptide binding]; other site 319224001903 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 319224001904 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 319224001905 HAMP domain; Region: HAMP; pfam00672 319224001906 Histidine kinase; Region: HisKA_3; pfam07730 319224001907 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224001908 ATP binding site [chemical binding]; other site 319224001909 Mg2+ binding site [ion binding]; other site 319224001910 G-X-G motif; other site 319224001911 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 319224001912 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 319224001913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224001914 Q-loop/lid; other site 319224001915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224001916 ABC transporter signature motif; other site 319224001917 ABC transporter signature motif; other site 319224001918 Walker B; other site 319224001919 Walker B; other site 319224001920 D-loop; other site 319224001921 D-loop; other site 319224001922 H-loop/switch region; other site 319224001923 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224001924 Walker A/P-loop; other site 319224001925 ATP binding site [chemical binding]; other site 319224001926 Q-loop/lid; other site 319224001927 ABC transporter signature motif; other site 319224001928 Walker B; other site 319224001929 D-loop; other site 319224001930 H-loop/switch region; other site 319224001931 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; cl17257 319224001932 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 319224001933 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 319224001934 catalytic residues [active] 319224001935 Predicted transcriptional regulators [Transcription]; Region: COG1695 319224001936 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 319224001937 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224001938 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 319224001939 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 319224001940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224001941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 319224001942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224001943 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 319224001944 SnoaL-like domain; Region: SnoaL_2; pfam12680 319224001945 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224001946 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224001947 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224001948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224001949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224001950 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 319224001951 putative effector binding pocket; other site 319224001952 dimerization interface [polypeptide binding]; other site 319224001953 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319224001954 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 319224001955 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 319224001956 oligomerisation interface [polypeptide binding]; other site 319224001957 mobile loop; other site 319224001958 roof hairpin; other site 319224001959 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 319224001960 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 319224001961 ring oligomerisation interface [polypeptide binding]; other site 319224001962 ATP/Mg binding site [chemical binding]; other site 319224001963 stacking interactions; other site 319224001964 hinge regions; other site 319224001965 SIR2-like domain; Region: SIR2_2; pfam13289 319224001966 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 319224001967 putative metal binding site [ion binding]; other site 319224001968 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 319224001969 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 319224001970 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 319224001971 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 319224001972 ATP binding site [chemical binding]; other site 319224001973 Transposase; Region: HTH_Tnp_1; cl17663 319224001974 putative outer membrane lipoprotein; Provisional; Region: PRK10510 319224001975 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224001976 ligand binding site [chemical binding]; other site 319224001977 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319224001978 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 319224001979 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 319224001980 MgtE intracellular N domain; Region: MgtE_N; smart00924 319224001981 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 319224001982 Divalent cation transporter; Region: MgtE; pfam01769 319224001983 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 319224001984 dimerization domain swap beta strand [polypeptide binding]; other site 319224001985 regulatory protein interface [polypeptide binding]; other site 319224001986 active site 319224001987 regulatory phosphorylation site [posttranslational modification]; other site 319224001988 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 319224001989 AAA domain; Region: AAA_18; pfam13238 319224001990 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 319224001991 active site 319224001992 phosphorylation site [posttranslational modification] 319224001993 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 319224001994 30S subunit binding site; other site 319224001995 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 319224001996 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 319224001997 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 319224001998 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 319224001999 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 319224002000 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 319224002001 Walker A/P-loop; other site 319224002002 ATP binding site [chemical binding]; other site 319224002003 Q-loop/lid; other site 319224002004 ABC transporter signature motif; other site 319224002005 Walker B; other site 319224002006 D-loop; other site 319224002007 H-loop/switch region; other site 319224002008 OstA-like protein; Region: OstA; cl00844 319224002009 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 319224002010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 319224002011 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 319224002012 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 319224002013 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 319224002014 active site 319224002015 motif I; other site 319224002016 motif II; other site 319224002017 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 319224002018 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 319224002019 putative active site [active] 319224002020 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 319224002021 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 319224002022 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 319224002023 Walker A/P-loop; other site 319224002024 ATP binding site [chemical binding]; other site 319224002025 Q-loop/lid; other site 319224002026 ABC transporter signature motif; other site 319224002027 Walker B; other site 319224002028 D-loop; other site 319224002029 H-loop/switch region; other site 319224002030 Permease; Region: Permease; cl00510 319224002031 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 319224002032 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 319224002033 mce related protein; Region: MCE; pfam02470 319224002034 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 319224002035 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 319224002036 anti sigma factor interaction site; other site 319224002037 regulatory phosphorylation site [posttranslational modification]; other site 319224002038 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 319224002039 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 319224002040 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 319224002041 hinge; other site 319224002042 active site 319224002043 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 319224002044 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 319224002045 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 319224002046 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 319224002047 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 319224002048 homodimer interface [polypeptide binding]; other site 319224002049 substrate-cofactor binding pocket; other site 319224002050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224002051 catalytic residue [active] 319224002052 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 319224002053 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 319224002054 Walker A/P-loop; other site 319224002055 ATP binding site [chemical binding]; other site 319224002056 Q-loop/lid; other site 319224002057 ABC transporter signature motif; other site 319224002058 Walker B; other site 319224002059 D-loop; other site 319224002060 H-loop/switch region; other site 319224002061 TOBE-like domain; Region: TOBE_3; pfam12857 319224002062 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319224002063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224002064 dimer interface [polypeptide binding]; other site 319224002065 conserved gate region; other site 319224002066 putative PBP binding loops; other site 319224002067 ABC-ATPase subunit interface; other site 319224002068 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319224002069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224002070 dimer interface [polypeptide binding]; other site 319224002071 conserved gate region; other site 319224002072 putative PBP binding loops; other site 319224002073 ABC-ATPase subunit interface; other site 319224002074 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 319224002075 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319224002076 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 319224002077 Serine hydrolase; Region: Ser_hydrolase; pfam06821 319224002078 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319224002079 His-Xaa-Ser system protein HsxD; Region: chp_LLNDYxLRE; TIGR03976 319224002080 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 319224002081 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 319224002082 FeS/SAM binding site; other site 319224002083 HSF-type DNA-binding; Region: HSF_DNA-bind; cl12113 319224002084 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 319224002085 putative transposase OrfB; Reviewed; Region: PHA02517 319224002086 HTH-like domain; Region: HTH_21; pfam13276 319224002087 Integrase core domain; Region: rve; pfam00665 319224002088 Integrase core domain; Region: rve_3; pfam13683 319224002089 Transposase; Region: HTH_Tnp_1; cl17663 319224002090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 319224002091 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 319224002092 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 319224002093 FeS/SAM binding site; other site 319224002094 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 319224002095 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319224002096 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 319224002097 protein binding site [polypeptide binding]; other site 319224002098 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 319224002099 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319224002100 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 319224002101 protein binding site [polypeptide binding]; other site 319224002102 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 319224002103 Predicted ATPase [General function prediction only]; Region: COG1485 319224002104 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 319224002105 23S rRNA interface [nucleotide binding]; other site 319224002106 L3 interface [polypeptide binding]; other site 319224002107 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 319224002108 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 319224002109 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 319224002110 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 319224002111 GDP-binding site [chemical binding]; other site 319224002112 ACT binding site; other site 319224002113 IMP binding site; other site 319224002114 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319224002115 Sel1-like repeats; Region: SEL1; smart00671 319224002116 exoribonuclease R; Provisional; Region: PRK11642 319224002117 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 319224002118 RNB domain; Region: RNB; pfam00773 319224002119 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 319224002120 RNA binding site [nucleotide binding]; other site 319224002121 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 319224002122 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 319224002123 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 319224002124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224002125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224002126 putative substrate translocation pore; other site 319224002127 Protein of unknown function, DUF481; Region: DUF481; pfam04338 319224002128 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 319224002129 primosomal replication protein N; Provisional; Region: PRK02801 319224002130 generic binding surface II; other site 319224002131 generic binding surface I; other site 319224002132 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 319224002133 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 319224002134 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 319224002135 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 319224002136 Peptidase S46; Region: Peptidase_S46; pfam10459 319224002137 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319224002138 replicative DNA helicase; Provisional; Region: PRK08006 319224002139 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 319224002140 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 319224002141 Walker A motif; other site 319224002142 ATP binding site [chemical binding]; other site 319224002143 Walker B motif; other site 319224002144 DNA binding loops [nucleotide binding] 319224002145 alanine racemase; Reviewed; Region: alr; PRK00053 319224002146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 319224002147 active site 319224002148 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319224002149 substrate binding site [chemical binding]; other site 319224002150 catalytic residues [active] 319224002151 dimer interface [polypeptide binding]; other site 319224002152 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 319224002153 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 319224002154 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 319224002155 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 319224002156 FMN binding site [chemical binding]; other site 319224002157 active site 319224002158 catalytic residues [active] 319224002159 substrate binding site [chemical binding]; other site 319224002160 PspC domain; Region: PspC; pfam04024 319224002161 enoyl-CoA hydratase; Provisional; Region: PRK06688 319224002162 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 319224002163 substrate binding site [chemical binding]; other site 319224002164 oxyanion hole (OAH) forming residues; other site 319224002165 trimer interface [polypeptide binding]; other site 319224002166 Protein of unknown function (DUF461); Region: DUF461; pfam04314 319224002167 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 319224002168 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 319224002169 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 319224002170 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 319224002171 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 319224002172 dimer interface [polypeptide binding]; other site 319224002173 ADP-ribose binding site [chemical binding]; other site 319224002174 active site 319224002175 nudix motif; other site 319224002176 metal binding site [ion binding]; metal-binding site 319224002177 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 319224002178 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 319224002179 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319224002180 active site 319224002181 metal binding site [ion binding]; metal-binding site 319224002182 hexamer interface [polypeptide binding]; other site 319224002183 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 319224002184 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319224002185 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 319224002186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224002187 ATP binding site [chemical binding]; other site 319224002188 Mg2+ binding site [ion binding]; other site 319224002189 G-X-G motif; other site 319224002190 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 319224002191 anchoring element; other site 319224002192 dimer interface [polypeptide binding]; other site 319224002193 ATP binding site [chemical binding]; other site 319224002194 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 319224002195 active site 319224002196 metal binding site [ion binding]; metal-binding site 319224002197 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 319224002198 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 319224002199 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 319224002200 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 319224002201 CAP-like domain; other site 319224002202 active site 319224002203 primary dimer interface [polypeptide binding]; other site 319224002204 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224002205 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224002206 dimer interface [polypeptide binding]; other site 319224002207 putative CheW interface [polypeptide binding]; other site 319224002208 Hemerythrin; Region: Hemerythrin; cd12107 319224002209 Fe binding site [ion binding]; other site 319224002210 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 319224002211 Superinfection exclusion protein B; Region: SieB; pfam14163 319224002212 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224002213 ATP binding site [chemical binding]; other site 319224002214 Mg2+ binding site [ion binding]; other site 319224002215 G-X-G motif; other site 319224002216 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 319224002217 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 319224002218 putative ATP binding site [chemical binding]; other site 319224002219 putative substrate interface [chemical binding]; other site 319224002220 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 319224002221 eyelet of channel; other site 319224002222 trimer interface [polypeptide binding]; other site 319224002223 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 319224002224 epoxyqueuosine reductase; Region: TIGR00276 319224002225 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 319224002226 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 319224002227 malate dehydrogenase; Provisional; Region: PRK13529 319224002228 Malic enzyme, N-terminal domain; Region: malic; pfam00390 319224002229 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 319224002230 NAD(P) binding site [chemical binding]; other site 319224002231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 319224002232 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 319224002233 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 319224002234 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 319224002235 Bacterial PH domain; Region: DUF304; pfam03703 319224002236 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 319224002237 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 319224002238 synthetase active site [active] 319224002239 NTP binding site [chemical binding]; other site 319224002240 metal binding site [ion binding]; metal-binding site 319224002241 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 319224002242 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 319224002243 active site 319224002244 Zn binding site [ion binding]; other site 319224002245 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 319224002246 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 319224002247 RNA binding surface [nucleotide binding]; other site 319224002248 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 319224002249 active site 319224002250 uracil binding [chemical binding]; other site 319224002251 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 319224002252 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 319224002253 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 319224002254 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224002255 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 319224002256 DNA binding residues [nucleotide binding] 319224002257 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 319224002258 dimerization interface [polypeptide binding]; other site 319224002259 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224002260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224002261 dimer interface [polypeptide binding]; other site 319224002262 putative CheW interface [polypeptide binding]; other site 319224002263 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 319224002264 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 319224002265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224002266 active site 319224002267 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 319224002268 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 319224002269 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 319224002270 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 319224002271 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 319224002272 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 319224002273 tRNA; other site 319224002274 putative tRNA binding site [nucleotide binding]; other site 319224002275 putative NADP binding site [chemical binding]; other site 319224002276 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 319224002277 peptide chain release factor 1; Validated; Region: prfA; PRK00591 319224002278 This domain is found in peptide chain release factors; Region: PCRF; smart00937 319224002279 RF-1 domain; Region: RF-1; pfam00472 319224002280 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 319224002281 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224002282 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 319224002283 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 319224002284 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 319224002285 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 319224002286 Tetratricopeptide repeat; Region: TPR_9; pfam13371 319224002287 Protein of unknown function (DUF819); Region: DUF819; cl02317 319224002288 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319224002289 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 319224002290 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 319224002291 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 319224002292 heme-binding residues [chemical binding]; other site 319224002293 L-aspartate oxidase; Provisional; Region: PRK06175 319224002294 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 319224002295 Gram-negative porin; Region: Porin_4; pfam13609 319224002296 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 319224002297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224002298 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 319224002299 dimerization interface [polypeptide binding]; other site 319224002300 Protein of unknown function (DUF819); Region: DUF819; cl02317 319224002301 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 319224002302 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 319224002303 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 319224002304 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319224002305 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 319224002306 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 319224002307 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 319224002308 Predicted integral membrane protein [Function unknown]; Region: COG5652 319224002309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 319224002310 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 319224002311 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 319224002312 muropeptide transporter; Reviewed; Region: ampG; PRK11902 319224002313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224002314 putative substrate translocation pore; other site 319224002315 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 319224002316 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 319224002317 substrate binding site [chemical binding]; other site 319224002318 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 319224002319 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 319224002320 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 319224002321 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 319224002322 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 319224002323 The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the...; Region: DnaQ_like_exo; cl10012 319224002324 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 319224002325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319224002326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319224002327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319224002328 aromatic acid decarboxylase; Validated; Region: PRK05920 319224002329 Flavoprotein; Region: Flavoprotein; pfam02441 319224002330 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224002331 active site 319224002332 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319224002333 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 319224002334 Walker A/P-loop; other site 319224002335 ATP binding site [chemical binding]; other site 319224002336 Q-loop/lid; other site 319224002337 ABC transporter signature motif; other site 319224002338 Walker B; other site 319224002339 D-loop; other site 319224002340 H-loop/switch region; other site 319224002341 inner membrane transport permease; Provisional; Region: PRK15066 319224002342 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 319224002343 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 319224002344 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 319224002345 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 319224002346 catalytic residues [active] 319224002347 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 319224002348 PA/protease or protease-like domain interface [polypeptide binding]; other site 319224002349 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 319224002350 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 319224002351 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 319224002352 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 319224002353 putative DNA binding site [nucleotide binding]; other site 319224002354 putative Zn2+ binding site [ion binding]; other site 319224002355 AsnC family; Region: AsnC_trans_reg; pfam01037 319224002356 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224002357 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224002358 active site 319224002359 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 319224002360 Peptidase family U32; Region: Peptidase_U32; pfam01136 319224002361 Collagenase; Region: DUF3656; pfam12392 319224002362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224002363 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 319224002364 Cupin domain; Region: Cupin_2; pfam07883 319224002365 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 319224002366 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 319224002367 active site 319224002368 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 319224002369 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 319224002370 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 319224002371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224002372 catalytic residue [active] 319224002373 MltA-interacting protein MipA; Region: MipA; cl01504 319224002374 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 319224002375 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224002376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224002377 active site 319224002378 phosphorylation site [posttranslational modification] 319224002379 intermolecular recognition site; other site 319224002380 dimerization interface [polypeptide binding]; other site 319224002381 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 319224002382 DNA binding site [nucleotide binding] 319224002383 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224002384 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 319224002385 dimerization interface [polypeptide binding]; other site 319224002386 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 319224002387 dimer interface [polypeptide binding]; other site 319224002388 phosphorylation site [posttranslational modification] 319224002389 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224002390 ATP binding site [chemical binding]; other site 319224002391 Mg2+ binding site [ion binding]; other site 319224002392 G-X-G motif; other site 319224002393 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 319224002394 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 319224002395 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 319224002396 active site 319224002397 catalytic tetrad [active] 319224002398 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 319224002399 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 319224002400 E3 interaction surface; other site 319224002401 lipoyl attachment site [posttranslational modification]; other site 319224002402 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 319224002403 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 319224002404 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 319224002405 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 319224002406 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 319224002407 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 319224002408 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 319224002409 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 319224002410 catalytic loop [active] 319224002411 iron binding site [ion binding]; other site 319224002412 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 319224002413 FAD binding pocket [chemical binding]; other site 319224002414 FAD binding motif [chemical binding]; other site 319224002415 phosphate binding motif [ion binding]; other site 319224002416 beta-alpha-beta structure motif; other site 319224002417 NAD binding pocket [chemical binding]; other site 319224002418 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 319224002419 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 319224002420 Beta-lactamase; Region: Beta-lactamase; pfam00144 319224002421 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 319224002422 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 319224002423 MarR family; Region: MarR; pfam01047 319224002424 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224002425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224002426 Coenzyme A binding pocket [chemical binding]; other site 319224002427 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 319224002428 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 319224002429 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 319224002430 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 319224002431 active site 319224002432 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 319224002433 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 319224002434 serine transporter; Region: stp; TIGR00814 319224002435 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 319224002436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224002437 Coenzyme A binding pocket [chemical binding]; other site 319224002438 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 319224002439 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 319224002440 META domain; Region: META; pfam03724 319224002441 S-adenosylmethionine synthetase; Validated; Region: PRK05250 319224002442 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 319224002443 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 319224002444 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 319224002445 transketolase; Reviewed; Region: PRK12753 319224002446 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 319224002447 TPP-binding site [chemical binding]; other site 319224002448 dimer interface [polypeptide binding]; other site 319224002449 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 319224002450 PYR/PP interface [polypeptide binding]; other site 319224002451 dimer interface [polypeptide binding]; other site 319224002452 TPP binding site [chemical binding]; other site 319224002453 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319224002454 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 319224002455 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 319224002456 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 319224002457 Phosphoglycerate kinase; Region: PGK; pfam00162 319224002458 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 319224002459 substrate binding site [chemical binding]; other site 319224002460 hinge regions; other site 319224002461 ADP binding site [chemical binding]; other site 319224002462 catalytic site [active] 319224002463 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 319224002464 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 319224002465 intersubunit interface [polypeptide binding]; other site 319224002466 active site 319224002467 zinc binding site [ion binding]; other site 319224002468 Na+ binding site [ion binding]; other site 319224002469 Protein of unknown function, DUF481; Region: DUF481; pfam04338 319224002470 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 319224002471 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 319224002472 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 319224002473 DNA binding site [nucleotide binding] 319224002474 PAS domain; Region: PAS_9; pfam13426 319224002475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224002476 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 319224002477 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 319224002478 FeS/SAM binding site; other site 319224002479 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224002480 Protein export membrane protein; Region: SecD_SecF; cl14618 319224002481 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224002482 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224002483 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 319224002484 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319224002485 ATP binding site [chemical binding]; other site 319224002486 Mg++ binding site [ion binding]; other site 319224002487 motif III; other site 319224002488 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 319224002489 nucleotide binding region [chemical binding]; other site 319224002490 ATP-binding site [chemical binding]; other site 319224002491 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 319224002492 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224002493 S-adenosylmethionine binding site [chemical binding]; other site 319224002494 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 319224002495 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 319224002496 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 319224002497 active site 319224002498 Int/Topo IB signature motif; other site 319224002499 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 319224002500 dimerization domain [polypeptide binding]; other site 319224002501 dimer interface [polypeptide binding]; other site 319224002502 catalytic residues [active] 319224002503 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 319224002504 DHH family; Region: DHH; pfam01368 319224002505 DHHA1 domain; Region: DHHA1; pfam02272 319224002506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224002507 Coenzyme A binding pocket [chemical binding]; other site 319224002508 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 319224002509 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 319224002510 catalytic residue [active] 319224002511 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 319224002512 catalytic residues [active] 319224002513 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224002514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224002515 peroxiredoxin; Region: AhpC; TIGR03137 319224002516 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 319224002517 dimer interface [polypeptide binding]; other site 319224002518 decamer (pentamer of dimers) interface [polypeptide binding]; other site 319224002519 catalytic triad [active] 319224002520 peroxidatic and resolving cysteines [active] 319224002521 multifunctional aminopeptidase A; Provisional; Region: PRK00913 319224002522 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 319224002523 interface (dimer of trimers) [polypeptide binding]; other site 319224002524 Substrate-binding/catalytic site; other site 319224002525 Zn-binding sites [ion binding]; other site 319224002526 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224002527 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319224002528 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319224002529 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 319224002530 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 319224002531 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 319224002532 putative ligand binding site [chemical binding]; other site 319224002533 putative NAD binding site [chemical binding]; other site 319224002534 catalytic site [active] 319224002535 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 319224002536 heme-binding residues [chemical binding]; other site 319224002537 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 319224002538 L-aspartate oxidase; Provisional; Region: PRK06175 319224002539 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224002540 S-adenosylmethionine binding site [chemical binding]; other site 319224002541 Rhomboid family; Region: Rhomboid; pfam01694 319224002542 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 319224002543 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319224002544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224002545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224002546 Predicted membrane protein [Function unknown]; Region: COG2119 319224002547 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 319224002548 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 319224002549 yybP-ykoY element as predicted by Rfam (RF00080), score 63.83 319224002550 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 319224002551 Peptidase S46; Region: Peptidase_S46; pfam10459 319224002552 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 319224002553 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 319224002554 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 319224002555 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 319224002556 RNA binding surface [nucleotide binding]; other site 319224002557 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 319224002558 probable active site [active] 319224002559 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 319224002560 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 319224002561 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224002562 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 319224002563 dimerization interface [polypeptide binding]; other site 319224002564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224002565 dimer interface [polypeptide binding]; other site 319224002566 putative CheW interface [polypeptide binding]; other site 319224002567 EamA-like transporter family; Region: EamA; pfam00892 319224002568 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 319224002569 Helix-turn-helix domain; Region: HTH_18; pfam12833 319224002570 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319224002571 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 319224002572 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 319224002573 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 319224002574 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 319224002575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224002576 DNA-binding site [nucleotide binding]; DNA binding site 319224002577 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 319224002578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224002579 homodimer interface [polypeptide binding]; other site 319224002580 catalytic residue [active] 319224002581 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 319224002582 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 319224002583 homodimer interface [polypeptide binding]; other site 319224002584 substrate-cofactor binding pocket; other site 319224002585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224002586 catalytic residue [active] 319224002587 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 319224002588 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 319224002589 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224002590 S-adenosylmethionine binding site [chemical binding]; other site 319224002591 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 319224002592 BolA-like protein; Region: BolA; cl00386 319224002593 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 319224002594 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 319224002595 S-ribosylhomocysteinase; Provisional; Region: PRK02260 319224002596 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 319224002597 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224002598 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 319224002599 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 319224002600 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 319224002601 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 319224002602 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 319224002603 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 319224002604 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 319224002605 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 319224002606 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 319224002607 FAD binding pocket [chemical binding]; other site 319224002608 FAD binding motif [chemical binding]; other site 319224002609 phosphate binding motif [ion binding]; other site 319224002610 beta-alpha-beta structure motif; other site 319224002611 NAD binding pocket [chemical binding]; other site 319224002612 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 319224002613 ApbE family; Region: ApbE; pfam02424 319224002614 Protein of unknown function (DUF539); Region: DUF539; cl01129 319224002615 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 319224002616 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 319224002617 heme binding site [chemical binding]; other site 319224002618 ferroxidase pore; other site 319224002619 ferroxidase diiron center [ion binding]; other site 319224002620 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 319224002621 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 319224002622 heme binding site [chemical binding]; other site 319224002623 ferroxidase pore; other site 319224002624 ferroxidase diiron center [ion binding]; other site 319224002625 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224002626 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 319224002627 dimerization interface [polypeptide binding]; other site 319224002628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224002629 dimer interface [polypeptide binding]; other site 319224002630 putative CheW interface [polypeptide binding]; other site 319224002631 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 319224002632 active site 319224002633 DNA polymerase IV; Validated; Region: PRK02406 319224002634 DNA binding site [nucleotide binding] 319224002635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224002636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224002637 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 319224002638 putative effector binding pocket; other site 319224002639 dimerization interface [polypeptide binding]; other site 319224002640 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 319224002641 EamA-like transporter family; Region: EamA; pfam00892 319224002642 EamA-like transporter family; Region: EamA; pfam00892 319224002643 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 319224002644 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 319224002645 metal binding site [ion binding]; metal-binding site 319224002646 dimer interface [polypeptide binding]; other site 319224002647 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; cl08294 319224002648 interface (dimer of trimers) [polypeptide binding]; other site 319224002649 Substrate-binding/catalytic site; other site 319224002650 Zn-binding sites [ion binding]; other site 319224002651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 319224002652 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 319224002653 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 319224002654 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 319224002655 Walker A/P-loop; other site 319224002656 ATP binding site [chemical binding]; other site 319224002657 Q-loop/lid; other site 319224002658 ABC transporter signature motif; other site 319224002659 Walker B; other site 319224002660 D-loop; other site 319224002661 H-loop/switch region; other site 319224002662 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 319224002663 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 319224002664 ABC-ATPase subunit interface; other site 319224002665 dimer interface [polypeptide binding]; other site 319224002666 putative PBP binding regions; other site 319224002667 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 319224002668 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 319224002669 putative hemin binding site; other site 319224002670 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 319224002671 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 319224002672 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 319224002673 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 319224002674 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 319224002675 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 319224002676 N-terminal plug; other site 319224002677 ligand-binding site [chemical binding]; other site 319224002678 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 319224002679 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 319224002680 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 319224002681 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 319224002682 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224002683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224002684 Walker A/P-loop; other site 319224002685 ATP binding site [chemical binding]; other site 319224002686 Q-loop/lid; other site 319224002687 ABC transporter signature motif; other site 319224002688 Walker B; other site 319224002689 D-loop; other site 319224002690 H-loop/switch region; other site 319224002691 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 319224002692 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 319224002693 acyl-activating enzyme (AAE) consensus motif; other site 319224002694 putative AMP binding site [chemical binding]; other site 319224002695 putative active site [active] 319224002696 putative CoA binding site [chemical binding]; other site 319224002697 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 319224002698 4Fe-4S binding domain; Region: Fer4_5; pfam12801 319224002699 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 319224002700 PAS domain S-box; Region: sensory_box; TIGR00229 319224002701 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 319224002702 putative active site [active] 319224002703 heme pocket [chemical binding]; other site 319224002704 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 319224002705 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 319224002706 Walker A motif; other site 319224002707 ATP binding site [chemical binding]; other site 319224002708 Walker B motif; other site 319224002709 arginine finger; other site 319224002710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224002711 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 319224002712 DsbD alpha interface [polypeptide binding]; other site 319224002713 catalytic residues [active] 319224002714 LysE type translocator; Region: LysE; cl00565 319224002715 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 319224002716 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 319224002717 ligand binding site [chemical binding]; other site 319224002718 active site 319224002719 UGI interface [polypeptide binding]; other site 319224002720 catalytic site [active] 319224002721 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 319224002722 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 319224002723 substrate binding pocket [chemical binding]; other site 319224002724 chain length determination region; other site 319224002725 substrate-Mg2+ binding site; other site 319224002726 catalytic residues [active] 319224002727 aspartate-rich region 1; other site 319224002728 active site lid residues [active] 319224002729 aspartate-rich region 2; other site 319224002730 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 319224002731 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 319224002732 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 319224002733 GTPase CgtA; Reviewed; Region: obgE; PRK12298 319224002734 GTP1/OBG; Region: GTP1_OBG; pfam01018 319224002735 Obg GTPase; Region: Obg; cd01898 319224002736 G1 box; other site 319224002737 GTP/Mg2+ binding site [chemical binding]; other site 319224002738 Switch I region; other site 319224002739 G2 box; other site 319224002740 G3 box; other site 319224002741 Switch II region; other site 319224002742 G4 box; other site 319224002743 G5 box; other site 319224002744 Uncharacterized conserved protein [Function unknown]; Region: COG2966 319224002745 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 319224002746 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 319224002747 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 319224002748 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 319224002749 NADP+ binding site [chemical binding]; other site 319224002750 folate binding site [chemical binding]; other site 319224002751 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 319224002752 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 319224002753 dimerization interface [polypeptide binding]; other site 319224002754 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224002755 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224002756 dimer interface [polypeptide binding]; other site 319224002757 putative CheW interface [polypeptide binding]; other site 319224002758 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 319224002759 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 319224002760 active site 319224002761 metal binding site [ion binding]; metal-binding site 319224002762 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 319224002763 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 319224002764 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 319224002765 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 319224002766 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 319224002767 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 319224002768 SurA N-terminal domain; Region: SurA_N; pfam09312 319224002769 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 319224002770 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 319224002771 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 319224002772 OstA-like protein; Region: OstA; cl00844 319224002773 Organic solvent tolerance protein; Region: OstA_C; pfam04453 319224002774 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 319224002775 Phosphotransferase enzyme family; Region: APH; pfam01636 319224002776 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 319224002777 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 319224002778 Substrate binding site; other site 319224002779 metal-binding site 319224002780 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 319224002781 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 319224002782 putative metal binding site [ion binding]; other site 319224002783 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 319224002784 HSP70 interaction site [polypeptide binding]; other site 319224002785 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 319224002786 glycerate dehydrogenase; Provisional; Region: PRK06487 319224002787 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 319224002788 putative ligand binding site [chemical binding]; other site 319224002789 putative NAD binding site [chemical binding]; other site 319224002790 catalytic site [active] 319224002791 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 319224002792 binding surface 319224002793 TPR motif; other site 319224002794 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 319224002795 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 319224002796 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224002797 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224002798 active site 319224002799 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 319224002800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224002801 ATP-grasp domain; Region: ATP-grasp; pfam02222 319224002802 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 319224002803 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 319224002804 Walker A/P-loop; other site 319224002805 ATP binding site [chemical binding]; other site 319224002806 Q-loop/lid; other site 319224002807 ABC transporter signature motif; other site 319224002808 Walker B; other site 319224002809 D-loop; other site 319224002810 H-loop/switch region; other site 319224002811 TOBE-like domain; Region: TOBE_3; pfam12857 319224002812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224002813 dimer interface [polypeptide binding]; other site 319224002814 conserved gate region; other site 319224002815 putative PBP binding loops; other site 319224002816 ABC-ATPase subunit interface; other site 319224002817 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319224002818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224002819 dimer interface [polypeptide binding]; other site 319224002820 conserved gate region; other site 319224002821 putative PBP binding loops; other site 319224002822 ABC-ATPase subunit interface; other site 319224002823 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 319224002824 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319224002825 cysteine synthase B; Region: cysM; TIGR01138 319224002826 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 319224002827 dimer interface [polypeptide binding]; other site 319224002828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224002829 catalytic residue [active] 319224002830 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 319224002831 Predicted Fe-S protein [General function prediction only]; Region: COG3313 319224002832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224002833 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 319224002834 dimer interface [polypeptide binding]; other site 319224002835 phosphorylation site [posttranslational modification] 319224002836 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224002837 ATP binding site [chemical binding]; other site 319224002838 Mg2+ binding site [ion binding]; other site 319224002839 G-X-G motif; other site 319224002840 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 319224002841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224002842 active site 319224002843 phosphorylation site [posttranslational modification] 319224002844 intermolecular recognition site; other site 319224002845 dimerization interface [polypeptide binding]; other site 319224002846 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 319224002847 DNA binding site [nucleotide binding] 319224002848 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 319224002849 MltA-interacting protein MipA; Region: MipA; cl01504 319224002850 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 319224002851 YcxB-like protein; Region: YcxB; pfam14317 319224002852 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224002853 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 319224002854 active site 319224002855 metal binding site [ion binding]; metal-binding site 319224002856 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 319224002857 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 319224002858 Predicted transcriptional regulator [Transcription]; Region: COG2345 319224002859 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 319224002860 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 319224002861 RNA binding surface [nucleotide binding]; other site 319224002862 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 319224002863 active site 319224002864 uracil binding [chemical binding]; other site 319224002865 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 319224002866 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224002867 dimer interface [polypeptide binding]; other site 319224002868 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 319224002869 putative CheW interface [polypeptide binding]; other site 319224002870 Outer membrane lipoprotein; Region: YfiO; pfam13525 319224002871 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 319224002872 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 319224002873 RNA binding surface [nucleotide binding]; other site 319224002874 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224002875 active site 319224002876 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 319224002877 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 319224002878 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 319224002879 Clp amino terminal domain; Region: Clp_N; pfam02861 319224002880 Clp amino terminal domain; Region: Clp_N; pfam02861 319224002881 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 319224002882 Walker A motif; other site 319224002883 ATP binding site [chemical binding]; other site 319224002884 Walker B motif; other site 319224002885 arginine finger; other site 319224002886 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 319224002887 Walker A motif; other site 319224002888 ATP binding site [chemical binding]; other site 319224002889 Walker B motif; other site 319224002890 arginine finger; other site 319224002891 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 319224002892 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 319224002893 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 319224002894 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 319224002895 DDE superfamily endonuclease; Region: DDE_3; pfam13358 319224002896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 319224002897 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 319224002898 oxaloacetate decarboxylase; Provisional; Region: PRK14040 319224002899 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 319224002900 active site 319224002901 catalytic residues [active] 319224002902 metal binding site [ion binding]; metal-binding site 319224002903 homodimer binding site [polypeptide binding]; other site 319224002904 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 319224002905 carboxyltransferase (CT) interaction site; other site 319224002906 biotinylation site [posttranslational modification]; other site 319224002907 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 319224002908 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 319224002909 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 319224002910 Predicted membrane protein [Function unknown]; Region: COG1238 319224002911 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319224002912 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319224002913 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224002914 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319224002915 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319224002916 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224002917 glutamate--cysteine ligase; Provisional; Region: PRK02107 319224002918 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 319224002919 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224002920 catalytic residue [active] 319224002921 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224002922 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 319224002923 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224002924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224002925 metal binding site [ion binding]; metal-binding site 319224002926 active site 319224002927 I-site; other site 319224002928 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 319224002929 ATP-grasp domain; Region: ATP-grasp; pfam02222 319224002930 AIR carboxylase; Region: AIRC; pfam00731 319224002931 putative transporter; Provisional; Region: PRK11660 319224002932 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319224002933 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319224002934 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 319224002935 von Willebrand factor; Region: vWF_A; pfam12450 319224002936 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 319224002937 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 319224002938 metal ion-dependent adhesion site (MIDAS); other site 319224002939 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 319224002940 RNA polymerase sigma factor; Provisional; Region: PRK12513 319224002941 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224002942 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; cl17257 319224002943 DNA binding residues [nucleotide binding] 319224002944 Hemerythrin-like domain; Region: Hr-like; cd12108 319224002945 Fe binding site [ion binding]; other site 319224002946 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 319224002947 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 319224002948 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 319224002949 active site 319224002950 dimer interface [polypeptide binding]; other site 319224002951 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 319224002952 dimer interface [polypeptide binding]; other site 319224002953 active site 319224002954 transaldolase-like protein; Provisional; Region: PTZ00411 319224002955 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 319224002956 active site 319224002957 dimer interface [polypeptide binding]; other site 319224002958 catalytic residue [active] 319224002959 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 319224002960 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224002961 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319224002962 ligand binding site [chemical binding]; other site 319224002963 putative phosphoketolase; Provisional; Region: PRK05261 319224002964 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 319224002965 TPP-binding site; other site 319224002966 XFP C-terminal domain; Region: XFP_C; pfam09363 319224002967 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 319224002968 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 319224002969 hypothetical protein; Validated; Region: PRK02101 319224002970 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 319224002971 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 319224002972 PA/protease or protease-like domain interface [polypeptide binding]; other site 319224002973 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 319224002974 Peptidase family M28; Region: Peptidase_M28; pfam04389 319224002975 metal binding site [ion binding]; metal-binding site 319224002976 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 319224002977 dimerization interface [polypeptide binding]; other site 319224002978 putative DNA binding site [nucleotide binding]; other site 319224002979 putative Zn2+ binding site [ion binding]; other site 319224002980 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 319224002981 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 319224002982 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 319224002983 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 319224002984 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 319224002985 active site 319224002986 Riboflavin kinase; Region: Flavokinase; smart00904 319224002987 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 319224002988 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 319224002989 HIGH motif; other site 319224002990 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 319224002991 active site 319224002992 KMSKS motif; other site 319224002993 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 319224002994 tRNA binding surface [nucleotide binding]; other site 319224002995 anticodon binding site; other site 319224002996 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 319224002997 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 319224002998 lipoprotein signal peptidase; Provisional; Region: PRK14787 319224002999 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 319224003000 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224003001 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 319224003002 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 319224003003 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 319224003004 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 319224003005 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 319224003006 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 319224003007 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 319224003008 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 319224003009 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 319224003010 Type II transport protein GspH; Region: GspH; pfam12019 319224003011 Type II transport protein GspH; Region: GspH; pfam12019 319224003012 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 319224003013 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319224003014 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319224003015 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224003016 Transcriptional regulators [Transcription]; Region: PurR; COG1609 319224003017 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 319224003018 DNA binding site [nucleotide binding] 319224003019 domain linker motif; other site 319224003020 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 319224003021 putative ligand binding site [chemical binding]; other site 319224003022 putative dimerization interface [polypeptide binding]; other site 319224003023 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 319224003024 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 319224003025 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 319224003026 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 319224003027 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 319224003028 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 319224003029 active site 319224003030 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 319224003031 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 319224003032 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 319224003033 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 319224003034 dimer interface [polypeptide binding]; other site 319224003035 active site 319224003036 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 319224003037 dimer interface [polypeptide binding]; other site 319224003038 active site 319224003039 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 319224003040 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 319224003041 active site 319224003042 dimer interface [polypeptide binding]; other site 319224003043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 319224003044 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 319224003045 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224003046 putative substrate translocation pore; other site 319224003047 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 319224003048 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 319224003049 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 319224003050 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 319224003051 tetrameric interface [polypeptide binding]; other site 319224003052 NAD binding site [chemical binding]; other site 319224003053 catalytic residues [active] 319224003054 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 319224003055 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 319224003056 inhibitor-cofactor binding pocket; inhibition site 319224003057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224003058 catalytic residue [active] 319224003059 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 319224003060 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 319224003061 NAD(P) binding site [chemical binding]; other site 319224003062 catalytic residues [active] 319224003063 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 319224003064 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 319224003065 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 319224003066 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 319224003067 active site residue [active] 319224003068 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 319224003069 active site residue [active] 319224003070 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 319224003071 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 319224003072 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 319224003073 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 319224003074 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 319224003075 non-specific DNA binding site [nucleotide binding]; other site 319224003076 salt bridge; other site 319224003077 sequence-specific DNA binding site [nucleotide binding]; other site 319224003078 Cupin domain; Region: Cupin_2; pfam07883 319224003079 Peptidase C26; Region: Peptidase_C26; pfam07722 319224003080 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 319224003081 catalytic triad [active] 319224003082 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 319224003083 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 319224003084 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 319224003085 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 319224003086 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 319224003087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224003088 Walker A/P-loop; other site 319224003089 ATP binding site [chemical binding]; other site 319224003090 Q-loop/lid; other site 319224003091 ABC transporter signature motif; other site 319224003092 Walker B; other site 319224003093 D-loop; other site 319224003094 H-loop/switch region; other site 319224003095 TOBE domain; Region: TOBE_2; pfam08402 319224003096 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224003097 dimer interface [polypeptide binding]; other site 319224003098 conserved gate region; other site 319224003099 putative PBP binding loops; other site 319224003100 ABC-ATPase subunit interface; other site 319224003101 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 319224003102 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224003103 dimer interface [polypeptide binding]; other site 319224003104 conserved gate region; other site 319224003105 putative PBP binding loops; other site 319224003106 ABC-ATPase subunit interface; other site 319224003107 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 319224003108 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 319224003109 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 319224003110 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 319224003111 tetramerization interface [polypeptide binding]; other site 319224003112 NAD(P) binding site [chemical binding]; other site 319224003113 catalytic residues [active] 319224003114 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 319224003115 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 319224003116 inhibitor-cofactor binding pocket; inhibition site 319224003117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224003118 catalytic residue [active] 319224003119 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 319224003120 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 319224003121 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 319224003122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224003123 putative substrate translocation pore; other site 319224003124 POT family; Region: PTR2; cl17359 319224003125 Cache domain; Region: Cache_1; pfam02743 319224003126 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 319224003127 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224003128 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224003129 dimer interface [polypeptide binding]; other site 319224003130 putative CheW interface [polypeptide binding]; other site 319224003131 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 319224003132 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 319224003133 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 319224003134 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 319224003135 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224003136 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 319224003137 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 319224003138 DNA binding residues [nucleotide binding] 319224003139 DNA primase; Validated; Region: dnaG; PRK05667 319224003140 CHC2 zinc finger; Region: zf-CHC2; pfam01807 319224003141 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 319224003142 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 319224003143 active site 319224003144 metal binding site [ion binding]; metal-binding site 319224003145 interdomain interaction site; other site 319224003146 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 319224003147 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 319224003148 Yqey-like protein; Region: YqeY; pfam09424 319224003149 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 319224003150 UGMP family protein; Validated; Region: PRK09604 319224003151 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 319224003152 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 319224003153 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 319224003154 homooctamer interface [polypeptide binding]; other site 319224003155 active site 319224003156 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 319224003157 catalytic center binding site [active] 319224003158 ATP binding site [chemical binding]; other site 319224003159 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 319224003160 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 319224003161 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224003162 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 319224003163 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 319224003164 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 319224003165 active site 319224003166 NTP binding site [chemical binding]; other site 319224003167 metal binding triad [ion binding]; metal-binding site 319224003168 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 319224003169 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224003170 Zn2+ binding site [ion binding]; other site 319224003171 Mg2+ binding site [ion binding]; other site 319224003172 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 319224003173 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 319224003174 Walker A motif; other site 319224003175 ATP binding site [chemical binding]; other site 319224003176 Walker B motif; other site 319224003177 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 319224003178 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 319224003179 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 319224003180 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 319224003181 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 319224003182 inhibitor-cofactor binding pocket; inhibition site 319224003183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224003184 catalytic residue [active] 319224003185 aspartate carbamoyltransferase; Provisional; Region: PRK08192 319224003186 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 319224003187 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 319224003188 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 319224003189 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 319224003190 Cl- selectivity filter; other site 319224003191 Cl- binding residues [ion binding]; other site 319224003192 pore gating glutamate residue; other site 319224003193 dimer interface [polypeptide binding]; other site 319224003194 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 319224003195 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 319224003196 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 319224003197 putative peptidase; Provisional; Region: PRK11649 319224003198 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 319224003199 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 319224003200 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224003201 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 319224003202 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 319224003203 active site 319224003204 HIGH motif; other site 319224003205 dimer interface [polypeptide binding]; other site 319224003206 KMSKS motif; other site 319224003207 S4 RNA-binding domain; Region: S4; smart00363 319224003208 SnoaL-like domain; Region: SnoaL_2; pfam12680 319224003209 hypothetical protein; Provisional; Region: PRK10578 319224003210 UPF0126 domain; Region: UPF0126; pfam03458 319224003211 UPF0126 domain; Region: UPF0126; pfam03458 319224003212 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 319224003213 Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]; Region: CbiB; COG1270 319224003214 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 319224003215 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 319224003216 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 319224003217 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 319224003218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224003219 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224003220 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 319224003221 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 319224003222 active site 319224003223 dimer interface [polypeptide binding]; other site 319224003224 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 319224003225 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 319224003226 active site 319224003227 FMN binding site [chemical binding]; other site 319224003228 substrate binding site [chemical binding]; other site 319224003229 3Fe-4S cluster binding site [ion binding]; other site 319224003230 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 319224003231 domain interface; other site 319224003232 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 319224003233 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 319224003234 FeS/SAM binding site; other site 319224003235 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 319224003236 putative binding surface; other site 319224003237 active site 319224003238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224003239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224003240 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 319224003241 dimerization interface [polypeptide binding]; other site 319224003242 cyclase homology domain; Region: CHD; cd07302 319224003243 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 319224003244 nucleotidyl binding site; other site 319224003245 metal binding site [ion binding]; metal-binding site 319224003246 dimer interface [polypeptide binding]; other site 319224003247 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 319224003248 putative DNA-binding cleft [nucleotide binding]; other site 319224003249 putative DNA clevage site; other site 319224003250 molecular lever; other site 319224003251 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 319224003252 putative active site [active] 319224003253 Ap4A binding site [chemical binding]; other site 319224003254 nudix motif; other site 319224003255 putative metal binding site [ion binding]; other site 319224003256 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 319224003257 GAF domain; Region: GAF; pfam01590 319224003258 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 319224003259 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 319224003260 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 319224003261 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319224003262 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 319224003263 thymidylate synthase; Reviewed; Region: thyA; PRK01827 319224003264 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 319224003265 dimerization interface [polypeptide binding]; other site 319224003266 active site 319224003267 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 319224003268 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 319224003269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224003270 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 319224003271 dimerization interface [polypeptide binding]; other site 319224003272 Uncharacterized conserved protein [Function unknown]; Region: COG2938 319224003273 L-aspartate oxidase; Provisional; Region: PRK09077 319224003274 L-aspartate oxidase; Provisional; Region: PRK06175 319224003275 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319224003276 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 319224003277 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224003278 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 319224003279 DNA binding residues [nucleotide binding] 319224003280 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 319224003281 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 319224003282 anti-sigma E factor; Provisional; Region: rseB; PRK09455 319224003283 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 319224003284 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 319224003285 GTP-binding protein LepA; Provisional; Region: PRK05433 319224003286 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 319224003287 G1 box; other site 319224003288 putative GEF interaction site [polypeptide binding]; other site 319224003289 GTP/Mg2+ binding site [chemical binding]; other site 319224003290 Switch I region; other site 319224003291 G2 box; other site 319224003292 G3 box; other site 319224003293 Switch II region; other site 319224003294 G4 box; other site 319224003295 G5 box; other site 319224003296 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 319224003297 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 319224003298 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 319224003299 signal peptidase I; Provisional; Region: PRK10861 319224003300 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 319224003301 Catalytic site [active] 319224003302 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 319224003303 ribonuclease III; Reviewed; Region: rnc; PRK00102 319224003304 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 319224003305 dimerization interface [polypeptide binding]; other site 319224003306 active site 319224003307 metal binding site [ion binding]; metal-binding site 319224003308 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 319224003309 dsRNA binding site [nucleotide binding]; other site 319224003310 GTPase Era; Reviewed; Region: era; PRK00089 319224003311 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 319224003312 G1 box; other site 319224003313 GTP/Mg2+ binding site [chemical binding]; other site 319224003314 Switch I region; other site 319224003315 G2 box; other site 319224003316 Switch II region; other site 319224003317 G3 box; other site 319224003318 G4 box; other site 319224003319 G5 box; other site 319224003320 KH domain; Region: KH_2; pfam07650 319224003321 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 319224003322 Recombination protein O N terminal; Region: RecO_N; pfam11967 319224003323 Recombination protein O C terminal; Region: RecO_C; pfam02565 319224003324 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 319224003325 active site 319224003326 hydrophilic channel; other site 319224003327 dimerization interface [polypeptide binding]; other site 319224003328 catalytic residues [active] 319224003329 active site lid [active] 319224003330 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 319224003331 Protein of unknown function (DUF962); Region: DUF962; cl01879 319224003332 Domain of unknown function DUF21; Region: DUF21; pfam01595 319224003333 hypothetical protein; Provisional; Region: PRK11573 319224003334 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 319224003335 Transporter associated domain; Region: CorC_HlyC; smart01091 319224003336 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319224003337 signal recognition particle protein; Provisional; Region: PRK10867 319224003338 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 319224003339 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 319224003340 P loop; other site 319224003341 GTP binding site [chemical binding]; other site 319224003342 Signal peptide binding domain; Region: SRP_SPB; pfam02978 319224003343 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 319224003344 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 319224003345 RimM N-terminal domain; Region: RimM; pfam01782 319224003346 PRC-barrel domain; Region: PRC; pfam05239 319224003347 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 319224003348 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 319224003349 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 319224003350 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319224003351 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 319224003352 Chorismate mutase type II; Region: CM_2; cl00693 319224003353 prephenate dehydrogenase; Validated; Region: PRK08507 319224003354 hybrid cluster protein; Provisional; Region: PRK05290 319224003355 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 319224003356 ACS interaction site; other site 319224003357 CODH interaction site; other site 319224003358 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 319224003359 ACS interaction site; other site 319224003360 CODH interaction site; other site 319224003361 metal cluster binding site [ion binding]; other site 319224003362 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 319224003363 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 319224003364 FAD binding pocket [chemical binding]; other site 319224003365 FAD binding motif [chemical binding]; other site 319224003366 phosphate binding motif [ion binding]; other site 319224003367 beta-alpha-beta structure motif; other site 319224003368 NAD binding pocket [chemical binding]; other site 319224003369 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 319224003370 catalytic loop [active] 319224003371 iron binding site [ion binding]; other site 319224003372 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 319224003373 Chorismate mutase type II; Region: CM_2; cl00693 319224003374 Prephenate dehydratase; Region: PDT; pfam00800 319224003375 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 319224003376 putative L-Phe binding site [chemical binding]; other site 319224003377 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 319224003378 multifunctional aminopeptidase A; Provisional; Region: PRK00913 319224003379 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 319224003380 interface (dimer of trimers) [polypeptide binding]; other site 319224003381 Substrate-binding/catalytic site; other site 319224003382 Zn-binding sites [ion binding]; other site 319224003383 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 319224003384 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 319224003385 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 319224003386 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 319224003387 RDD family; Region: RDD; pfam06271 319224003388 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 319224003389 Protein of unknown function, DUF486; Region: DUF486; pfam04342 319224003390 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 319224003391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224003392 Coenzyme A binding pocket [chemical binding]; other site 319224003393 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 319224003394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 319224003395 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 319224003396 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 319224003397 hypothetical protein; Provisional; Region: PRK09898 319224003398 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 319224003399 putative oxidoreductase; Provisional; Region: PRK09849 319224003400 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 319224003401 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 319224003402 hypothetical protein; Provisional; Region: PRK09947 319224003403 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 319224003404 intracellular protease, PfpI family; Region: PfpI; TIGR01382 319224003405 conserved cys residue [active] 319224003406 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 319224003407 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 319224003408 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 319224003409 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 319224003410 ATP binding site [chemical binding]; other site 319224003411 Mg++ binding site [ion binding]; other site 319224003412 motif III; other site 319224003413 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 319224003414 nucleotide binding region [chemical binding]; other site 319224003415 ATP-binding site [chemical binding]; other site 319224003416 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 319224003417 PAS fold; Region: PAS_3; pfam08447 319224003418 putative active site [active] 319224003419 heme pocket [chemical binding]; other site 319224003420 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224003421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224003422 dimer interface [polypeptide binding]; other site 319224003423 putative CheW interface [polypeptide binding]; other site 319224003424 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 319224003425 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 319224003426 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 319224003427 active site 319224003428 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 319224003429 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 319224003430 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 319224003431 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 319224003432 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224003433 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 319224003434 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 319224003435 Predicted membrane protein [Function unknown]; Region: COG2311 319224003436 Protein of unknown function (DUF418); Region: DUF418; cl12135 319224003437 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 319224003438 nucleoside/Zn binding site; other site 319224003439 dimer interface [polypeptide binding]; other site 319224003440 catalytic motif [active] 319224003441 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 319224003442 CoenzymeA binding site [chemical binding]; other site 319224003443 subunit interaction site [polypeptide binding]; other site 319224003444 PHB binding site; other site 319224003445 Domain of unknown function (DUF368); Region: DUF368; pfam04018 319224003446 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 319224003447 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 319224003448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 319224003449 YheO-like PAS domain; Region: PAS_6; pfam08348 319224003450 HTH domain; Region: HTH_22; pfam13309 319224003451 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 319224003452 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 319224003453 dimerization interface [polypeptide binding]; other site 319224003454 putative DNA binding site [nucleotide binding]; other site 319224003455 putative Zn2+ binding site [ion binding]; other site 319224003456 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 319224003457 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 319224003458 ArsC family; Region: ArsC; pfam03960 319224003459 catalytic residues [active] 319224003460 arsenical pump membrane protein; Provisional; Region: PRK15445 319224003461 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 319224003462 transmembrane helices; other site 319224003463 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 319224003464 glutathione (GSH) binding pocket [chemical binding]; other site 319224003465 active site residues [active] 319224003466 ATP binding pocket [chemical binding]; other site 319224003467 magnesium binding site [ion binding]; other site 319224003468 glycine rich loop; other site 319224003469 alanine rich loop; other site 319224003470 Predicted permeases [General function prediction only]; Region: COG0701 319224003471 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 319224003472 dimerization interface [polypeptide binding]; other site 319224003473 putative DNA binding site [nucleotide binding]; other site 319224003474 putative Zn2+ binding site [ion binding]; other site 319224003475 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 319224003476 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319224003477 active site 319224003478 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 319224003479 dimerization interface [polypeptide binding]; other site 319224003480 putative DNA binding site [nucleotide binding]; other site 319224003481 putative Zn2+ binding site [ion binding]; other site 319224003482 Predicted permeases [General function prediction only]; Region: COG0701 319224003483 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 319224003484 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 319224003485 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 319224003486 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 319224003487 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224003488 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224003489 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 319224003490 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319224003491 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319224003492 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 319224003493 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 319224003494 Ligand Binding Site [chemical binding]; other site 319224003495 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 319224003496 Ligand Binding Site [chemical binding]; other site 319224003497 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 319224003498 SmpB-tmRNA interface; other site 319224003499 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 319224003500 putative coenzyme Q binding site [chemical binding]; other site 319224003501 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 319224003502 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 319224003503 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 319224003504 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 319224003505 active site 319224003506 SAM binding site [chemical binding]; other site 319224003507 homodimer interface [polypeptide binding]; other site 319224003508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224003509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224003510 metal binding site [ion binding]; metal-binding site 319224003511 active site 319224003512 I-site; other site 319224003513 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 319224003514 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 319224003515 TrkA-N domain; Region: TrkA_N; pfam02254 319224003516 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 319224003517 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319224003518 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 319224003519 malate synthase A; Region: malate_syn_A; TIGR01344 319224003520 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 319224003521 active site 319224003522 isocitrate lyase; Provisional; Region: PRK15063 319224003523 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 319224003524 tetramer interface [polypeptide binding]; other site 319224003525 active site 319224003526 Mg2+/Mn2+ binding site [ion binding]; other site 319224003527 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 319224003528 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319224003529 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224003530 putative alcohol dehydrogenase; Provisional; Region: PRK09860 319224003531 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 319224003532 dimer interface [polypeptide binding]; other site 319224003533 active site 319224003534 metal binding site [ion binding]; metal-binding site 319224003535 Transcriptional regulators [Transcription]; Region: MarR; COG1846 319224003536 MarR family; Region: MarR; pfam01047 319224003537 MarR family; Region: MarR_2; cl17246 319224003538 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 319224003539 active site 319224003540 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 319224003541 glycogen branching enzyme; Provisional; Region: PRK05402 319224003542 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 319224003543 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 319224003544 active site 319224003545 catalytic site [active] 319224003546 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 319224003547 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 319224003548 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 319224003549 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 319224003550 active site 319224003551 catalytic site [active] 319224003552 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 319224003553 homodimer interface [polypeptide binding]; other site 319224003554 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 319224003555 active site pocket [active] 319224003556 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 319224003557 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 319224003558 ligand binding site; other site 319224003559 oligomer interface; other site 319224003560 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 319224003561 dimer interface [polypeptide binding]; other site 319224003562 N-terminal domain interface [polypeptide binding]; other site 319224003563 sulfate 1 binding site; other site 319224003564 glycogen synthase; Provisional; Region: glgA; PRK00654 319224003565 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 319224003566 ADP-binding pocket [chemical binding]; other site 319224003567 homodimer interface [polypeptide binding]; other site 319224003568 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 319224003569 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 319224003570 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319224003571 putative active site [active] 319224003572 heme pocket [chemical binding]; other site 319224003573 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 319224003574 PAS domain; Region: PAS_9; pfam13426 319224003575 putative active site [active] 319224003576 heme pocket [chemical binding]; other site 319224003577 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224003578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224003579 metal binding site [ion binding]; metal-binding site 319224003580 active site 319224003581 I-site; other site 319224003582 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 319224003583 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 319224003584 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 319224003585 ATP binding site [chemical binding]; other site 319224003586 Mg++ binding site [ion binding]; other site 319224003587 motif III; other site 319224003588 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 319224003589 nucleotide binding region [chemical binding]; other site 319224003590 ATP-binding site [chemical binding]; other site 319224003591 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 319224003592 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 319224003593 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 319224003594 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 319224003595 substrate binding pocket [chemical binding]; other site 319224003596 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224003597 membrane-bound complex binding site; other site 319224003598 hinge residues; other site 319224003599 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 319224003600 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224003601 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224003602 putative substrate translocation pore; other site 319224003603 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 319224003604 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 319224003605 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 319224003606 Putative esterase; Region: Esterase; pfam00756 319224003607 putative acetyltransferase YhhY; Provisional; Region: PRK10140 319224003608 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224003609 Coenzyme A binding pocket [chemical binding]; other site 319224003610 This domain is found at the N terminal of the mitochondrial ATPase BSC1. It encodes the import and intramitochondrial sorting for the protein; Region: BCS1_N; smart01024 319224003611 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 319224003612 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 319224003613 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 319224003614 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 319224003615 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 319224003616 Cysteine-rich domain; Region: CCG; pfam02754 319224003617 Cysteine-rich domain; Region: CCG; pfam02754 319224003618 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319224003619 FAD binding domain; Region: FAD_binding_4; pfam01565 319224003620 4Fe-4S binding domain; Region: Fer4; pfam00037 319224003621 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 319224003622 L-lactate permease; Region: Lactate_perm; cl00701 319224003623 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 319224003624 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 319224003625 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 319224003626 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 319224003627 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 319224003628 dimer interface [polypeptide binding]; other site 319224003629 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 319224003630 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 319224003631 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 319224003632 TPP-binding site; other site 319224003633 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 319224003634 PYR/PP interface [polypeptide binding]; other site 319224003635 dimer interface [polypeptide binding]; other site 319224003636 TPP binding site [chemical binding]; other site 319224003637 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319224003638 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 319224003639 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 319224003640 substrate binding pocket [chemical binding]; other site 319224003641 chain length determination region; other site 319224003642 substrate-Mg2+ binding site; other site 319224003643 catalytic residues [active] 319224003644 aspartate-rich region 1; other site 319224003645 active site lid residues [active] 319224003646 aspartate-rich region 2; other site 319224003647 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 319224003648 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 319224003649 flagellar motor protein PomA; Reviewed; Region: PRK08990 319224003650 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 319224003651 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 319224003652 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224003653 ligand binding site [chemical binding]; other site 319224003654 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 319224003655 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 319224003656 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 319224003657 Ligand Binding Site [chemical binding]; other site 319224003658 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 319224003659 active site residue [active] 319224003660 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 319224003661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224003662 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 319224003663 dimerization interface [polypeptide binding]; other site 319224003664 substrate binding pocket [chemical binding]; other site 319224003665 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 319224003666 Protein of unknown function (DUF423); Region: DUF423; pfam04241 319224003667 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 319224003668 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 319224003669 isocitrate dehydrogenase; Provisional; Region: PRK08997 319224003670 tartrate dehydrogenase; Region: TTC; TIGR02089 319224003671 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319224003672 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224003673 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 319224003674 flap endonuclease-like protein; Provisional; Region: PRK09482 319224003675 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 319224003676 active site 319224003677 metal binding site 1 [ion binding]; metal-binding site 319224003678 putative 5' ssDNA interaction site; other site 319224003679 metal binding site 3; metal-binding site 319224003680 metal binding site 2 [ion binding]; metal-binding site 319224003681 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 319224003682 putative DNA binding site [nucleotide binding]; other site 319224003683 putative metal binding site [ion binding]; other site 319224003684 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 319224003685 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 319224003686 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224003687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224003688 metal binding site [ion binding]; metal-binding site 319224003689 active site 319224003690 I-site; other site 319224003691 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 319224003692 binding surface 319224003693 TPR motif; other site 319224003694 Tetratricopeptide repeat; Region: TPR_12; pfam13424 319224003695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 319224003696 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 319224003697 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 319224003698 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 319224003699 protein binding site [polypeptide binding]; other site 319224003700 recombination associated protein; Reviewed; Region: rdgC; PRK00321 319224003701 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 319224003702 trimer interface [polypeptide binding]; other site 319224003703 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 319224003704 eyelet of channel; other site 319224003705 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 319224003706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224003707 active site 319224003708 phosphorylation site [posttranslational modification] 319224003709 intermolecular recognition site; other site 319224003710 dimerization interface [polypeptide binding]; other site 319224003711 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 319224003712 DNA binding site [nucleotide binding] 319224003713 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 319224003714 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 319224003715 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 319224003716 putative active site [active] 319224003717 heme pocket [chemical binding]; other site 319224003718 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 319224003719 dimer interface [polypeptide binding]; other site 319224003720 phosphorylation site [posttranslational modification] 319224003721 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224003722 ATP binding site [chemical binding]; other site 319224003723 Mg2+ binding site [ion binding]; other site 319224003724 G-X-G motif; other site 319224003725 PBP superfamily domain; Region: PBP_like_2; cl17296 319224003726 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 319224003727 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 319224003728 active site 319224003729 Zn binding site [ion binding]; other site 319224003730 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 319224003731 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 319224003732 catalytic residues [active] 319224003733 dimer interface [polypeptide binding]; other site 319224003734 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 319224003735 MgtE intracellular N domain; Region: MgtE_N; smart00924 319224003736 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 319224003737 Divalent cation transporter; Region: MgtE; cl00786 319224003738 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 319224003739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224003740 Coenzyme A binding pocket [chemical binding]; other site 319224003741 YfaZ precursor; Region: YfaZ; pfam07437 319224003742 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 319224003743 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 319224003744 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224003745 S-adenosylmethionine binding site [chemical binding]; other site 319224003746 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 319224003747 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 319224003748 C-terminal domain interface [polypeptide binding]; other site 319224003749 GSH binding site (G-site) [chemical binding]; other site 319224003750 dimer interface [polypeptide binding]; other site 319224003751 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 319224003752 N-terminal domain interface [polypeptide binding]; other site 319224003753 putative dimer interface [polypeptide binding]; other site 319224003754 active site 319224003755 TIGR02453 family protein; Region: TIGR02453 319224003756 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 319224003757 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 319224003758 N-terminal plug; other site 319224003759 ligand-binding site [chemical binding]; other site 319224003760 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 319224003761 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 319224003762 PhnA protein; Region: PhnA; pfam03831 319224003763 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 319224003764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224003765 putative substrate translocation pore; other site 319224003766 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 319224003767 MarR family; Region: MarR; pfam01047 319224003768 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 319224003769 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 319224003770 putative active site [active] 319224003771 Zn binding site [ion binding]; other site 319224003772 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 319224003773 dimerization interface [polypeptide binding]; other site 319224003774 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224003775 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224003776 dimer interface [polypeptide binding]; other site 319224003777 putative CheW interface [polypeptide binding]; other site 319224003778 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 319224003779 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 319224003780 BON domain; Region: BON; pfam04972 319224003781 BON domain; Region: BON; pfam04972 319224003782 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319224003783 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 319224003784 Walker A motif; other site 319224003785 ATP binding site [chemical binding]; other site 319224003786 Walker B motif; other site 319224003787 arginine finger; other site 319224003788 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224003789 hypothetical protein; Provisional; Region: PRK12361 319224003790 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 319224003791 active site 319224003792 catalytic residues [active] 319224003793 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 319224003794 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 319224003795 FMN binding site [chemical binding]; other site 319224003796 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 319224003797 substrate binding site [chemical binding]; other site 319224003798 putative catalytic residue [active] 319224003799 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 319224003800 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 319224003801 active site 319224003802 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 319224003803 active site 319224003804 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 319224003805 active site 2 [active] 319224003806 dimer interface [polypeptide binding]; other site 319224003807 active site 1 [active] 319224003808 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 319224003809 active site 1 [active] 319224003810 dimer interface [polypeptide binding]; other site 319224003811 active site 2 [active] 319224003812 Acyl transferase domain; Region: Acyl_transf_1; cl08282 319224003813 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 319224003814 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 319224003815 active site 319224003816 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 319224003817 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 319224003818 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 319224003819 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 319224003820 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 319224003821 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 319224003822 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 319224003823 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 319224003824 putative NADP binding site [chemical binding]; other site 319224003825 active site 319224003826 Winged helix-turn helix; Region: HTH_29; pfam13551 319224003827 Homeodomain-like domain; Region: HTH_23; pfam13384 319224003828 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 319224003829 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 319224003830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 319224003831 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 319224003832 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 319224003833 SecY interacting protein Syd; Provisional; Region: PRK04968 319224003834 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 319224003835 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 319224003836 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 319224003837 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 319224003838 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 319224003839 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 319224003840 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 319224003841 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224003842 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 319224003843 probable active site [active] 319224003844 flavodoxin; Provisional; Region: PRK08105 319224003845 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 319224003846 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 319224003847 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 319224003848 active site turn [active] 319224003849 phosphorylation site [posttranslational modification] 319224003850 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 319224003851 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 319224003852 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 319224003853 putative active site [active] 319224003854 putative substrate binding site [chemical binding]; other site 319224003855 putative cosubstrate binding site; other site 319224003856 catalytic site [active] 319224003857 PAS domain; Region: PAS_9; pfam13426 319224003858 GAF domain; Region: GAF_2; pfam13185 319224003859 GAF domain; Region: GAF; pfam01590 319224003860 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 319224003861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224003862 Zn2+ binding site [ion binding]; other site 319224003863 Mg2+ binding site [ion binding]; other site 319224003864 FOG: CBS domain [General function prediction only]; Region: COG0517 319224003865 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 319224003866 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 319224003867 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 319224003868 trimer interface [polypeptide binding]; other site 319224003869 active site 319224003870 substrate binding site [chemical binding]; other site 319224003871 CoA binding site [chemical binding]; other site 319224003872 PII uridylyl-transferase; Provisional; Region: PRK05007 319224003873 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 319224003874 metal binding triad; other site 319224003875 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 319224003876 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 319224003877 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 319224003878 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 319224003879 active site 319224003880 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 319224003881 rRNA interaction site [nucleotide binding]; other site 319224003882 S8 interaction site; other site 319224003883 putative laminin-1 binding site; other site 319224003884 elongation factor Ts; Provisional; Region: tsf; PRK09377 319224003885 UBA/TS-N domain; Region: UBA; pfam00627 319224003886 Elongation factor TS; Region: EF_TS; pfam00889 319224003887 Elongation factor TS; Region: EF_TS; pfam00889 319224003888 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 319224003889 putative nucleotide binding site [chemical binding]; other site 319224003890 uridine monophosphate binding site [chemical binding]; other site 319224003891 homohexameric interface [polypeptide binding]; other site 319224003892 ribosome recycling factor; Reviewed; Region: frr; PRK00083 319224003893 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 319224003894 hinge region; other site 319224003895 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 319224003896 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 319224003897 catalytic residue [active] 319224003898 putative FPP diphosphate binding site; other site 319224003899 putative FPP binding hydrophobic cleft; other site 319224003900 dimer interface [polypeptide binding]; other site 319224003901 putative IPP diphosphate binding site; other site 319224003902 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 319224003903 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 319224003904 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 319224003905 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 319224003906 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 319224003907 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 319224003908 zinc metallopeptidase RseP; Provisional; Region: PRK10779 319224003909 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 319224003910 active site 319224003911 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 319224003912 protein binding site [polypeptide binding]; other site 319224003913 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 319224003914 protein binding site [polypeptide binding]; other site 319224003915 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 319224003916 putative substrate binding region [chemical binding]; other site 319224003917 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 319224003918 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319224003919 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319224003920 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319224003921 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319224003922 Surface antigen; Region: Bac_surface_Ag; pfam01103 319224003923 periplasmic chaperone; Provisional; Region: PRK10780 319224003924 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 319224003925 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 319224003926 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 319224003927 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 319224003928 trimer interface [polypeptide binding]; other site 319224003929 active site 319224003930 UDP-GlcNAc binding site [chemical binding]; other site 319224003931 lipid binding site [chemical binding]; lipid-binding site 319224003932 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 319224003933 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 319224003934 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 319224003935 active site 319224003936 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 319224003937 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 319224003938 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 319224003939 RNA/DNA hybrid binding site [nucleotide binding]; other site 319224003940 active site 319224003941 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 319224003942 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 319224003943 putative active site [active] 319224003944 putative PHP Thumb interface [polypeptide binding]; other site 319224003945 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 319224003946 generic binding surface II; other site 319224003947 generic binding surface I; other site 319224003948 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 319224003949 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 319224003950 Ligand Binding Site [chemical binding]; other site 319224003951 TilS substrate binding domain; Region: TilS; pfam09179 319224003952 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 319224003953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224003954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224003955 metal binding site [ion binding]; metal-binding site 319224003956 active site 319224003957 I-site; other site 319224003958 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 319224003959 DNA-binding site [nucleotide binding]; DNA binding site 319224003960 RNA-binding motif; other site 319224003961 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 319224003962 SWIM zinc finger; Region: SWIM; pfam04434 319224003963 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 319224003964 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 319224003965 ATP binding site [chemical binding]; other site 319224003966 putative Mg++ binding site [ion binding]; other site 319224003967 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 319224003968 nucleotide binding region [chemical binding]; other site 319224003969 ATP-binding site [chemical binding]; other site 319224003970 putative hydrolase; Validated; Region: PRK09248 319224003971 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 319224003972 active site 319224003973 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 319224003974 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 319224003975 active site 319224003976 fructokinase; Reviewed; Region: PRK09557 319224003977 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 319224003978 nucleotide binding site [chemical binding]; other site 319224003979 Uncharacterized conserved protein [Function unknown]; Region: COG1434 319224003980 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 319224003981 putative active site [active] 319224003982 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 319224003983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224003984 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 319224003985 Coenzyme A binding pocket [chemical binding]; other site 319224003986 Putative transposase; Region: Y2_Tnp; pfam04986 319224003987 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 319224003988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224003989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224003990 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 319224003991 dimerization interface [polypeptide binding]; other site 319224003992 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 319224003993 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 319224003994 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 319224003995 UDP-glucose 4-epimerase; Region: PLN02240 319224003996 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 319224003997 NAD binding site [chemical binding]; other site 319224003998 homodimer interface [polypeptide binding]; other site 319224003999 active site 319224004000 substrate binding site [chemical binding]; other site 319224004001 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 319224004002 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 319224004003 active site 319224004004 tetramer interface; other site 319224004005 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 319224004006 cofactor binding site; other site 319224004007 metal binding site [ion binding]; metal-binding site 319224004008 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 319224004009 aromatic arch; other site 319224004010 DCoH dimer interaction site [polypeptide binding]; other site 319224004011 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 319224004012 DCoH tetramer interaction site [polypeptide binding]; other site 319224004013 substrate binding site [chemical binding]; other site 319224004014 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 319224004015 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 319224004016 putative aromatic amino acid binding site; other site 319224004017 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 319224004018 Walker A motif; other site 319224004019 ATP binding site [chemical binding]; other site 319224004020 Walker B motif; other site 319224004021 arginine finger; other site 319224004022 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 319224004023 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 319224004024 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 319224004025 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 319224004026 maleylacetoacetate isomerase; Region: maiA; TIGR01262 319224004027 C-terminal domain interface [polypeptide binding]; other site 319224004028 GSH binding site (G-site) [chemical binding]; other site 319224004029 putative dimer interface [polypeptide binding]; other site 319224004030 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 319224004031 dimer interface [polypeptide binding]; other site 319224004032 N-terminal domain interface [polypeptide binding]; other site 319224004033 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 319224004034 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 319224004035 outer membrane protein W; Provisional; Region: PRK10959 319224004036 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 319224004037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224004038 NAD(P) binding site [chemical binding]; other site 319224004039 active site 319224004040 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 319224004041 homoserine O-succinyltransferase; Provisional; Region: PRK05368 319224004042 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 319224004043 proposed active site lysine [active] 319224004044 conserved cys residue [active] 319224004045 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 319224004046 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224004047 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 319224004048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224004049 dimer interface [polypeptide binding]; other site 319224004050 putative CheW interface [polypeptide binding]; other site 319224004051 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 319224004052 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 319224004053 dimer interface [polypeptide binding]; other site 319224004054 active site 319224004055 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 319224004056 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 319224004057 tetrameric interface [polypeptide binding]; other site 319224004058 NAD binding site [chemical binding]; other site 319224004059 catalytic residues [active] 319224004060 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 319224004061 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 319224004062 active site 319224004063 enoyl-CoA hydratase; Provisional; Region: PRK09076 319224004064 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 319224004065 substrate binding site [chemical binding]; other site 319224004066 oxyanion hole (OAH) forming residues; other site 319224004067 trimer interface [polypeptide binding]; other site 319224004068 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 319224004069 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 319224004070 substrate binding site [chemical binding]; other site 319224004071 oxyanion hole (OAH) forming residues; other site 319224004072 trimer interface [polypeptide binding]; other site 319224004073 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 319224004074 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 319224004075 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 319224004076 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 319224004077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224004078 NAD(P) binding site [chemical binding]; other site 319224004079 active site 319224004080 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 319224004081 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224004082 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 319224004083 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 319224004084 DNA binding residues [nucleotide binding] 319224004085 dimer interface [polypeptide binding]; other site 319224004086 copper binding site [ion binding]; other site 319224004087 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319224004088 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 319224004089 metal-binding site [ion binding] 319224004090 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224004091 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319224004092 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 319224004093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224004094 Walker A/P-loop; other site 319224004095 ATP binding site [chemical binding]; other site 319224004096 Q-loop/lid; other site 319224004097 ABC transporter signature motif; other site 319224004098 Walker B; other site 319224004099 D-loop; other site 319224004100 H-loop/switch region; other site 319224004101 ABC transporter; Region: ABC_tran_2; pfam12848 319224004102 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224004103 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 319224004104 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 319224004105 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319224004106 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319224004107 FAD binding domain; Region: FAD_binding_4; pfam01565 319224004108 Berberine and berberine like; Region: BBE; pfam08031 319224004109 PAS domain S-box; Region: sensory_box; TIGR00229 319224004110 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 319224004111 putative active site [active] 319224004112 heme pocket [chemical binding]; other site 319224004113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224004114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224004115 metal binding site [ion binding]; metal-binding site 319224004116 active site 319224004117 I-site; other site 319224004118 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 319224004119 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 319224004120 DNA binding site [nucleotide binding] 319224004121 AAA ATPase domain; Region: AAA_16; pfam13191 319224004122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224004123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224004124 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224004125 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 319224004126 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224004127 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319224004128 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 319224004129 Walker A/P-loop; other site 319224004130 ATP binding site [chemical binding]; other site 319224004131 Q-loop/lid; other site 319224004132 ABC transporter signature motif; other site 319224004133 Walker B; other site 319224004134 D-loop; other site 319224004135 H-loop/switch region; other site 319224004136 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 319224004137 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 319224004138 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 319224004139 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 319224004140 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 319224004141 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 319224004142 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 319224004143 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 319224004144 dimerization interface [polypeptide binding]; other site 319224004145 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224004146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224004147 dimer interface [polypeptide binding]; other site 319224004148 putative CheW interface [polypeptide binding]; other site 319224004149 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 319224004150 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 319224004151 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_24; cd09012 319224004152 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224004153 Pleckstrin homology-like domain; Region: PH-like; cl17171 319224004154 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 319224004155 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 319224004156 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 319224004157 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 319224004158 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 319224004159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224004160 conserved gate region; other site 319224004161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224004162 ABC-ATPase subunit interface; other site 319224004163 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 319224004164 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 319224004165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224004166 dimer interface [polypeptide binding]; other site 319224004167 conserved gate region; other site 319224004168 putative PBP binding loops; other site 319224004169 ABC-ATPase subunit interface; other site 319224004170 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 319224004171 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 319224004172 Walker A/P-loop; other site 319224004173 ATP binding site [chemical binding]; other site 319224004174 Q-loop/lid; other site 319224004175 ABC transporter signature motif; other site 319224004176 Walker B; other site 319224004177 D-loop; other site 319224004178 H-loop/switch region; other site 319224004179 transcriptional regulator PhoU; Provisional; Region: PRK11115 319224004180 PhoU domain; Region: PhoU; pfam01895 319224004181 PhoU domain; Region: PhoU; pfam01895 319224004182 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 319224004183 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224004184 HAMP domain; Region: HAMP; pfam00672 319224004185 dimerization interface [polypeptide binding]; other site 319224004186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224004187 dimer interface [polypeptide binding]; other site 319224004188 putative CheW interface [polypeptide binding]; other site 319224004189 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 319224004190 dimer interface [polypeptide binding]; other site 319224004191 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224004192 metal binding site [ion binding]; metal-binding site 319224004193 Protein of unknown function (DUF502); Region: DUF502; pfam04367 319224004194 BCCT family transporter; Region: BCCT; pfam02028 319224004195 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 319224004196 active site 319224004197 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 319224004198 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224004199 S-adenosylmethionine binding site [chemical binding]; other site 319224004200 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 319224004201 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 319224004202 dimer interface [polypeptide binding]; other site 319224004203 active site 319224004204 CoA binding pocket [chemical binding]; other site 319224004205 haloalkane dehalogenase; Provisional; Region: PRK03592 319224004206 peptide synthase; Provisional; Region: PRK09274 319224004207 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319224004208 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 319224004209 acyl-activating enzyme (AAE) consensus motif; other site 319224004210 putative AMP binding site [chemical binding]; other site 319224004211 putative active site [active] 319224004212 putative CoA binding site [chemical binding]; other site 319224004213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224004214 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 319224004215 NAD(P) binding site [chemical binding]; other site 319224004216 active site 319224004217 GSCFA family; Region: GSCFA; pfam08885 319224004218 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 319224004219 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 319224004220 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 319224004221 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 319224004222 Walker A/P-loop; other site 319224004223 ATP binding site [chemical binding]; other site 319224004224 Q-loop/lid; other site 319224004225 ABC transporter signature motif; other site 319224004226 Walker B; other site 319224004227 D-loop; other site 319224004228 H-loop/switch region; other site 319224004229 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 319224004230 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 319224004231 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 319224004232 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 319224004233 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 319224004234 Zn binding site [ion binding]; other site 319224004235 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 319224004236 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 319224004237 active site 319224004238 substrate binding site [chemical binding]; other site 319224004239 metal binding site [ion binding]; metal-binding site 319224004240 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 319224004241 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224004242 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 319224004243 Predicted transcriptional regulator [Transcription]; Region: COG2378 319224004244 HTH domain; Region: HTH_11; pfam08279 319224004245 WYL domain; Region: WYL; pfam13280 319224004246 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 319224004247 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 319224004248 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 319224004249 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 319224004250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224004251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224004252 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 319224004253 trimer interface [polypeptide binding]; other site 319224004254 active site 319224004255 substrate binding site [chemical binding]; other site 319224004256 CoA binding site [chemical binding]; other site 319224004257 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 319224004258 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 319224004259 putative transposase OrfB; Reviewed; Region: PHA02517 319224004260 HTH-like domain; Region: HTH_21; pfam13276 319224004261 Integrase core domain; Region: rve; pfam00665 319224004262 Integrase core domain; Region: rve_3; pfam13683 319224004263 Transposase; Region: HTH_Tnp_1; cl17663 319224004264 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 319224004265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224004266 catalytic residue [active] 319224004267 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 319224004268 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 319224004269 fructuronate transporter; Provisional; Region: PRK10034; cl15264 319224004270 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 319224004271 putative heme binding pocket [chemical binding]; other site 319224004272 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 319224004273 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 319224004274 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 319224004275 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 319224004276 putative uracil binding site [chemical binding]; other site 319224004277 putative active site [active] 319224004278 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 319224004279 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 319224004280 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 319224004281 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 319224004282 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 319224004283 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 319224004284 heme-binding residues [chemical binding]; other site 319224004285 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 319224004286 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 319224004287 heme-binding residues [chemical binding]; other site 319224004288 FeoA domain; Region: FeoA; pfam04023 319224004289 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 319224004290 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 319224004291 G1 box; other site 319224004292 GTP/Mg2+ binding site [chemical binding]; other site 319224004293 Switch I region; other site 319224004294 G2 box; other site 319224004295 G3 box; other site 319224004296 Switch II region; other site 319224004297 G4 box; other site 319224004298 G5 box; other site 319224004299 Nucleoside recognition; Region: Gate; pfam07670 319224004300 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 319224004301 Nucleoside recognition; Region: Gate; pfam07670 319224004302 Nucleoside recognition; Region: Gate; pfam07670 319224004303 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 319224004304 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319224004305 active site 319224004306 HIGH motif; other site 319224004307 nucleotide binding site [chemical binding]; other site 319224004308 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 319224004309 KMSKS motif; other site 319224004310 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 319224004311 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 319224004312 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 319224004313 active site 319224004314 dinuclear metal binding site [ion binding]; other site 319224004315 dimerization interface [polypeptide binding]; other site 319224004316 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319224004317 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 319224004318 putative active site [active] 319224004319 putative metal binding site [ion binding]; other site 319224004320 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 319224004321 substrate binding site [chemical binding]; other site 319224004322 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 319224004323 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 319224004324 active site 319224004325 HIGH motif; other site 319224004326 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 319224004327 KMSKS motif; other site 319224004328 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 319224004329 tRNA binding surface [nucleotide binding]; other site 319224004330 anticodon binding site; other site 319224004331 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 319224004332 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 319224004333 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 319224004334 homodimer interface [polypeptide binding]; other site 319224004335 NADP binding site [chemical binding]; other site 319224004336 substrate binding site [chemical binding]; other site 319224004337 trigger factor; Provisional; Region: tig; PRK01490 319224004338 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224004339 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 319224004340 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 319224004341 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 319224004342 oligomer interface [polypeptide binding]; other site 319224004343 active site residues [active] 319224004344 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 319224004345 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 319224004346 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 319224004347 Walker A motif; other site 319224004348 ATP binding site [chemical binding]; other site 319224004349 Walker B motif; other site 319224004350 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 319224004351 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 319224004352 Found in ATP-dependent protease La (LON); Region: LON; smart00464 319224004353 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 319224004354 Walker A motif; other site 319224004355 ATP binding site [chemical binding]; other site 319224004356 Walker B motif; other site 319224004357 arginine finger; other site 319224004358 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 319224004359 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 319224004360 IHF dimer interface [polypeptide binding]; other site 319224004361 IHF - DNA interface [nucleotide binding]; other site 319224004362 periplasmic folding chaperone; Provisional; Region: PRK10788 319224004363 SurA N-terminal domain; Region: SurA_N_3; cl07813 319224004364 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 319224004365 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 319224004366 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 319224004367 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 319224004368 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 319224004369 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 319224004370 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 319224004371 Walker A/P-loop; other site 319224004372 ATP binding site [chemical binding]; other site 319224004373 Q-loop/lid; other site 319224004374 ABC transporter signature motif; other site 319224004375 Walker B; other site 319224004376 D-loop; other site 319224004377 H-loop/switch region; other site 319224004378 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 319224004379 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 319224004380 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 319224004381 Walker A/P-loop; other site 319224004382 ATP binding site [chemical binding]; other site 319224004383 Q-loop/lid; other site 319224004384 ABC transporter signature motif; other site 319224004385 Walker B; other site 319224004386 D-loop; other site 319224004387 H-loop/switch region; other site 319224004388 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 319224004389 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 319224004390 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 319224004391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224004392 dimer interface [polypeptide binding]; other site 319224004393 conserved gate region; other site 319224004394 putative PBP binding loops; other site 319224004395 ABC-ATPase subunit interface; other site 319224004396 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 319224004397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224004398 dimer interface [polypeptide binding]; other site 319224004399 conserved gate region; other site 319224004400 putative PBP binding loops; other site 319224004401 ABC-ATPase subunit interface; other site 319224004402 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 319224004403 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 319224004404 peptide binding site [polypeptide binding]; other site 319224004405 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319224004406 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 319224004407 Walker A motif; other site 319224004408 ATP binding site [chemical binding]; other site 319224004409 Walker B motif; other site 319224004410 arginine finger; other site 319224004411 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224004412 phage shock protein A; Region: phageshock_pspA; TIGR02977 319224004413 phage shock protein B; Provisional; Region: pspB; PRK09458 319224004414 phage shock protein C; Region: phageshock_pspC; TIGR02978 319224004415 PspC domain; Region: PspC; cl00864 319224004416 YcjX-like family, DUF463; Region: DUF463; pfam04317 319224004417 hypothetical protein; Provisional; Region: PRK05415 319224004418 Domain of unknown function (DUF697); Region: DUF697; pfam05128 319224004419 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 319224004420 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 319224004421 homodimer interface [polypeptide binding]; other site 319224004422 substrate-cofactor binding pocket; other site 319224004423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224004424 catalytic residue [active] 319224004425 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 319224004426 Helix-hairpin-helix motif; Region: HHH; pfam00633 319224004427 Late competence development protein ComFB; Region: ComFB; pfam10719 319224004428 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 319224004429 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 319224004430 hypothetical protein; Provisional; Region: PRK10621 319224004431 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319224004432 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 319224004433 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 319224004434 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 319224004435 DNA polymerase II; Reviewed; Region: PRK05762 319224004436 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 319224004437 active site 319224004438 catalytic site [active] 319224004439 substrate binding site [chemical binding]; other site 319224004440 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 319224004441 active site 319224004442 metal-binding site 319224004443 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 319224004444 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 319224004445 trimer interface [polypeptide binding]; other site 319224004446 eyelet of channel; other site 319224004447 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 319224004448 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 319224004449 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224004450 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 319224004451 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 319224004452 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 319224004453 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 319224004454 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 319224004455 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 319224004456 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 319224004457 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 319224004458 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 319224004459 TPR motif; other site 319224004460 binding surface 319224004461 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 319224004462 TPR motif; other site 319224004463 binding surface 319224004464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224004465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224004466 metal binding site [ion binding]; metal-binding site 319224004467 active site 319224004468 I-site; other site 319224004469 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 319224004470 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 319224004471 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224004472 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 319224004473 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 319224004474 RNA binding surface [nucleotide binding]; other site 319224004475 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 319224004476 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 319224004477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224004478 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 319224004479 dimerization interface [polypeptide binding]; other site 319224004480 substrate binding pocket [chemical binding]; other site 319224004481 hypothetical protein; Provisional; Region: PRK10621 319224004482 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319224004483 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 319224004484 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 319224004485 active site 319224004486 metal binding site [ion binding]; metal-binding site 319224004487 DNA binding site [nucleotide binding] 319224004488 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 319224004489 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 319224004490 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 319224004491 Walker A/P-loop; other site 319224004492 ATP binding site [chemical binding]; other site 319224004493 Q-loop/lid; other site 319224004494 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 319224004495 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 319224004496 ABC transporter signature motif; other site 319224004497 Walker B; other site 319224004498 D-loop; other site 319224004499 H-loop/switch region; other site 319224004500 putative peptidase; Provisional; Region: PRK11649 319224004501 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 319224004502 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224004503 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 319224004504 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 319224004505 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 319224004506 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 319224004507 ATP binding site [chemical binding]; other site 319224004508 Mg++ binding site [ion binding]; other site 319224004509 motif III; other site 319224004510 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 319224004511 nucleotide binding region [chemical binding]; other site 319224004512 ATP-binding site [chemical binding]; other site 319224004513 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 319224004514 active site 319224004515 nucleophile elbow; other site 319224004516 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 319224004517 ATP cone domain; Region: ATP-cone; pfam03477 319224004518 Class III ribonucleotide reductase; Region: RNR_III; cd01675 319224004519 effector binding site; other site 319224004520 active site 319224004521 Zn binding site [ion binding]; other site 319224004522 glycine loop; other site 319224004523 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 319224004524 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 319224004525 hypothetical protein; Provisional; Region: PRK11020 319224004526 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 319224004527 dimerization interface [polypeptide binding]; other site 319224004528 active site 319224004529 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 319224004530 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 319224004531 Carbon starvation protein CstA; Region: CstA; pfam02554 319224004532 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 319224004533 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 319224004534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224004535 active site 319224004536 phosphorylation site [posttranslational modification] 319224004537 intermolecular recognition site; other site 319224004538 dimerization interface [polypeptide binding]; other site 319224004539 LytTr DNA-binding domain; Region: LytTR; smart00850 319224004540 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 319224004541 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 319224004542 GAF domain; Region: GAF; pfam01590 319224004543 Histidine kinase; Region: His_kinase; pfam06580 319224004544 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224004545 ATP binding site [chemical binding]; other site 319224004546 Mg2+ binding site [ion binding]; other site 319224004547 G-X-G motif; other site 319224004548 Protein of unknown function (DUF2492); Region: DUF2492; pfam10678 319224004549 ParA-like protein; Provisional; Region: PHA02518 319224004550 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 319224004551 P-loop; other site 319224004552 Magnesium ion binding site [ion binding]; other site 319224004553 PilZ domain; Region: PilZ; pfam07238 319224004554 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 319224004555 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 319224004556 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 319224004557 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 319224004558 Competence protein; Region: Competence; pfam03772 319224004559 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 319224004560 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 319224004561 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224004562 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 319224004563 Walker A/P-loop; other site 319224004564 ATP binding site [chemical binding]; other site 319224004565 Q-loop/lid; other site 319224004566 ABC transporter signature motif; other site 319224004567 Walker B; other site 319224004568 D-loop; other site 319224004569 H-loop/switch region; other site 319224004570 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 319224004571 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 319224004572 Uncharacterized conserved protein [Function unknown]; Region: COG2835 319224004573 Predicted membrane protein [Function unknown]; Region: COG3235 319224004574 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 319224004575 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 319224004576 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 319224004577 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 319224004578 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 319224004579 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 319224004580 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 319224004581 Protein of unknown function (DUF445); Region: DUF445; pfam04286 319224004582 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 319224004583 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224004584 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 319224004585 cytidine deaminase; Provisional; Region: PRK09027 319224004586 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 319224004587 active site 319224004588 catalytic motif [active] 319224004589 Zn binding site [ion binding]; other site 319224004590 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 319224004591 exonuclease I; Provisional; Region: sbcB; PRK11779 319224004592 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 319224004593 active site 319224004594 catalytic site [active] 319224004595 substrate binding site [chemical binding]; other site 319224004596 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 319224004597 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 319224004598 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224004599 S-adenosylmethionine binding site [chemical binding]; other site 319224004600 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 319224004601 DNA-binding site [nucleotide binding]; DNA binding site 319224004602 RNA-binding motif; other site 319224004603 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 319224004604 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 319224004605 homodimer interface [polypeptide binding]; other site 319224004606 oligonucleotide binding site [chemical binding]; other site 319224004607 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 319224004608 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 319224004609 RNA binding surface [nucleotide binding]; other site 319224004610 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224004611 active site 319224004612 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319224004613 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 319224004614 motif II; other site 319224004615 Maf-like protein; Region: Maf; pfam02545 319224004616 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 319224004617 active site 319224004618 dimer interface [polypeptide binding]; other site 319224004619 hypothetical protein; Provisional; Region: PRK11193 319224004620 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 319224004621 putative phosphate acyltransferase; Provisional; Region: PRK05331 319224004622 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 319224004623 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 319224004624 dimer interface [polypeptide binding]; other site 319224004625 active site 319224004626 CoA binding pocket [chemical binding]; other site 319224004627 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 319224004628 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 319224004629 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 319224004630 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 319224004631 NAD(P) binding site [chemical binding]; other site 319224004632 homotetramer interface [polypeptide binding]; other site 319224004633 homodimer interface [polypeptide binding]; other site 319224004634 active site 319224004635 acyl carrier protein; Provisional; Region: acpP; PRK00982 319224004636 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 319224004637 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 319224004638 dimer interface [polypeptide binding]; other site 319224004639 active site 319224004640 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 319224004641 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 319224004642 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 319224004643 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 319224004644 active site 319224004645 phosphate binding residues; other site 319224004646 catalytic residues [active] 319224004647 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 319224004648 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 319224004649 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 319224004650 active site 319224004651 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 319224004652 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319224004653 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 319224004654 N-terminal plug; other site 319224004655 ligand-binding site [chemical binding]; other site 319224004656 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 319224004657 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 319224004658 active site 319224004659 nucleophile elbow; other site 319224004660 asparagine synthetase B; Provisional; Region: asnB; PRK09431 319224004661 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 319224004662 active site 319224004663 dimer interface [polypeptide binding]; other site 319224004664 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 319224004665 Ligand Binding Site [chemical binding]; other site 319224004666 Molecular Tunnel; other site 319224004667 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 319224004668 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 319224004669 PA/protease or protease-like domain interface [polypeptide binding]; other site 319224004670 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 319224004671 Peptidase family M28; Region: Peptidase_M28; pfam04389 319224004672 metal binding site [ion binding]; metal-binding site 319224004673 UMP phosphatase; Provisional; Region: PRK10444 319224004674 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 319224004675 active site 319224004676 motif I; other site 319224004677 motif II; other site 319224004678 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 319224004679 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 319224004680 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 319224004681 active site 319224004682 substrate binding site [chemical binding]; other site 319224004683 cosubstrate binding site; other site 319224004684 catalytic site [active] 319224004685 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 319224004686 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 319224004687 dimerization interface [polypeptide binding]; other site 319224004688 putative ATP binding site [chemical binding]; other site 319224004689 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224004690 active site 319224004691 Predicted permease [General function prediction only]; Region: COG2056 319224004692 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 319224004693 peroxidase; Provisional; Region: PRK15000 319224004694 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 319224004695 dimer interface [polypeptide binding]; other site 319224004696 decamer (pentamer of dimers) interface [polypeptide binding]; other site 319224004697 catalytic triad [active] 319224004698 peroxidatic and resolving cysteines [active] 319224004699 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 319224004700 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 319224004701 dimer interface [polypeptide binding]; other site 319224004702 catalytic site [active] 319224004703 putative active site [active] 319224004704 putative substrate binding site [chemical binding]; other site 319224004705 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319224004706 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224004707 ligand binding site [chemical binding]; other site 319224004708 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 319224004709 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224004710 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 319224004711 active site 319224004712 TolQ protein; Region: tolQ; TIGR02796 319224004713 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 319224004714 TolR protein; Region: tolR; TIGR02801 319224004715 TolA protein; Region: tolA_full; TIGR02794 319224004716 TolA C-terminal; Region: TolA; pfam06519 319224004717 translocation protein TolB; Provisional; Region: tolB; PRK04792 319224004718 TolB amino-terminal domain; Region: TolB_N; pfam04052 319224004719 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224004720 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224004721 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224004722 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224004723 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 319224004724 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224004725 ligand binding site [chemical binding]; other site 319224004726 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 319224004727 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 319224004728 binding surface 319224004729 TPR motif; other site 319224004730 hypothetical protein; Provisional; Region: PRK03641 319224004731 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 319224004732 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 319224004733 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 319224004734 active site 319224004735 metal binding site [ion binding]; metal-binding site 319224004736 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 319224004737 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 319224004738 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 319224004739 active site 319224004740 Zn binding site [ion binding]; other site 319224004741 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 319224004742 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 319224004743 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 319224004744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 319224004745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224004746 Coenzyme A binding pocket [chemical binding]; other site 319224004747 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 319224004748 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 319224004749 substrate binding pocket [chemical binding]; other site 319224004750 membrane-bound complex binding site; other site 319224004751 hinge residues; other site 319224004752 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 319224004753 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 319224004754 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 319224004755 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 319224004756 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 319224004757 generic binding surface II; other site 319224004758 generic binding surface I; other site 319224004759 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 319224004760 putative active site [active] 319224004761 putative catalytic site [active] 319224004762 putative Mg binding site IVb [ion binding]; other site 319224004763 putative phosphate binding site [ion binding]; other site 319224004764 putative DNA binding site [nucleotide binding]; other site 319224004765 putative Mg binding site IVa [ion binding]; other site 319224004766 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 319224004767 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 319224004768 active site 319224004769 Int/Topo IB signature motif; other site 319224004770 DNA binding site [nucleotide binding] 319224004771 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 319224004772 Putative transposase; Region: Y2_Tnp; pfam04986 319224004773 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 319224004774 HSP70 interaction site [polypeptide binding]; other site 319224004775 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 319224004776 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 319224004777 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224004778 S-adenosylmethionine binding site [chemical binding]; other site 319224004779 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224004780 S-adenosylmethionine binding site [chemical binding]; other site 319224004781 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 319224004782 ABC transporter ATPase component; Reviewed; Region: PRK11147 319224004783 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224004784 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224004785 ABC transporter; Region: ABC_tran_2; pfam12848 319224004786 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224004787 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 319224004788 ribosome modulation factor; Provisional; Region: PRK14563 319224004789 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 319224004790 active site 1 [active] 319224004791 dimer interface [polypeptide binding]; other site 319224004792 active site 2 [active] 319224004793 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 319224004794 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 319224004795 response regulator; Provisional; Region: PRK09483 319224004796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224004797 active site 319224004798 phosphorylation site [posttranslational modification] 319224004799 intermolecular recognition site; other site 319224004800 dimerization interface [polypeptide binding]; other site 319224004801 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 319224004802 DNA binding residues [nucleotide binding] 319224004803 dimerization interface [polypeptide binding]; other site 319224004804 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 319224004805 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 319224004806 GIY-YIG motif/motif A; other site 319224004807 active site 319224004808 catalytic site [active] 319224004809 putative DNA binding site [nucleotide binding]; other site 319224004810 metal binding site [ion binding]; metal-binding site 319224004811 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 319224004812 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 319224004813 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319224004814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224004815 Walker A/P-loop; other site 319224004816 ATP binding site [chemical binding]; other site 319224004817 Q-loop/lid; other site 319224004818 ABC transporter signature motif; other site 319224004819 Walker B; other site 319224004820 D-loop; other site 319224004821 H-loop/switch region; other site 319224004822 hypothetical protein; Provisional; Region: PRK11239 319224004823 Protein of unknown function, DUF480; Region: DUF480; pfam04337 319224004824 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 319224004825 S1 domain; Region: S1_2; pfam13509 319224004826 arginine decarboxylase; Provisional; Region: PRK05354 319224004827 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 319224004828 dimer interface [polypeptide binding]; other site 319224004829 active site 319224004830 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319224004831 catalytic residues [active] 319224004832 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 319224004833 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 319224004834 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 319224004835 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 319224004836 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 319224004837 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 319224004838 YceI-like domain; Region: YceI; pfam04264 319224004839 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 319224004840 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 319224004841 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 319224004842 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 319224004843 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 319224004844 nucleotide binding site/active site [active] 319224004845 HIT family signature motif; other site 319224004846 catalytic residue [active] 319224004847 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 319224004848 CoenzymeA binding site [chemical binding]; other site 319224004849 subunit interaction site [polypeptide binding]; other site 319224004850 PHB binding site; other site 319224004851 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 319224004852 CoenzymeA binding site [chemical binding]; other site 319224004853 subunit interaction site [polypeptide binding]; other site 319224004854 PHB binding site; other site 319224004855 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 319224004856 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 319224004857 putative dimer interface [polypeptide binding]; other site 319224004858 purine nucleoside phosphorylase; Provisional; Region: PRK13374 319224004859 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 319224004860 putative transporter; Provisional; Region: PRK03699 319224004861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224004862 putative substrate translocation pore; other site 319224004863 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 319224004864 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 319224004865 ligand binding site [chemical binding]; other site 319224004866 flexible hinge region; other site 319224004867 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; cl17320 319224004868 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319224004869 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 319224004870 N-terminal plug; other site 319224004871 ligand-binding site [chemical binding]; other site 319224004872 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 319224004873 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 319224004874 Phosphotransferase enzyme family; Region: APH; pfam01636 319224004875 active site 319224004876 ATP binding site [chemical binding]; other site 319224004877 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 319224004878 substrate binding site [chemical binding]; other site 319224004879 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 319224004880 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 319224004881 putative FMN binding site [chemical binding]; other site 319224004882 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224004883 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 319224004884 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 319224004885 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 319224004886 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 319224004887 Protein of unknown function, DUF482; Region: DUF482; pfam04339 319224004888 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 319224004889 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 319224004890 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 319224004891 dimer interface [polypeptide binding]; other site 319224004892 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 319224004893 active site 319224004894 Fe binding site [ion binding]; other site 319224004895 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 319224004896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224004897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224004898 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 319224004899 dimerization interface [polypeptide binding]; other site 319224004900 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 319224004901 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 319224004902 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 319224004903 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224004904 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 319224004905 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319224004906 Uncharacterized conserved protein [Function unknown]; Region: COG2947 319224004907 AMP-binding domain protein; Validated; Region: PRK08315 319224004908 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319224004909 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 319224004910 acyl-activating enzyme (AAE) consensus motif; other site 319224004911 putative AMP binding site [chemical binding]; other site 319224004912 putative active site [active] 319224004913 putative CoA binding site [chemical binding]; other site 319224004914 Cache domain; Region: Cache_1; pfam02743 319224004915 PAS fold; Region: PAS_4; pfam08448 319224004916 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 319224004917 putative active site [active] 319224004918 heme pocket [chemical binding]; other site 319224004919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224004920 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224004921 ATP binding site [chemical binding]; other site 319224004922 Mg2+ binding site [ion binding]; other site 319224004923 G-X-G motif; other site 319224004924 disulfide bond formation protein B; Provisional; Region: PRK01749 319224004925 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 319224004926 fatty acid metabolism regulator; Provisional; Region: PRK04984 319224004927 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224004928 DNA-binding site [nucleotide binding]; DNA binding site 319224004929 FadR C-terminal domain; Region: FadR_C; pfam07840 319224004930 SpoVR family protein; Provisional; Region: PRK11767 319224004931 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 319224004932 hypothetical protein; Provisional; Region: PRK05325 319224004933 PrkA family serine protein kinase; Provisional; Region: PRK15455 319224004934 AAA ATPase domain; Region: AAA_16; pfam13191 319224004935 Walker A motif; other site 319224004936 ATP binding site [chemical binding]; other site 319224004937 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 319224004938 superoxide dismutase; Provisional; Region: PRK10543 319224004939 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 319224004940 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 319224004941 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 319224004942 putative GSH binding site [chemical binding]; other site 319224004943 catalytic residues [active] 319224004944 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 319224004945 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 319224004946 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 319224004947 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 319224004948 Walker A motif; other site 319224004949 ATP binding site [chemical binding]; other site 319224004950 Walker B motif; other site 319224004951 arginine finger; other site 319224004952 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 319224004953 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 319224004954 ArsC family; Region: ArsC; pfam03960 319224004955 catalytic residues [active] 319224004956 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 319224004957 Peptidase family M48; Region: Peptidase_M48; cl12018 319224004958 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 319224004959 binding surface 319224004960 TPR motif; other site 319224004961 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 319224004962 CPxP motif; other site 319224004963 Domain of unknown function DUF20; Region: UPF0118; pfam01594 319224004964 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 319224004965 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 319224004966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224004967 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 319224004968 putative dimerization interface [polypeptide binding]; other site 319224004969 Lysine efflux permease [General function prediction only]; Region: COG1279 319224004970 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 319224004971 catalytic triad [active] 319224004972 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 319224004973 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 319224004974 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 319224004975 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 319224004976 dihydrodipicolinate synthase; Region: dapA; TIGR00674 319224004977 dimer interface [polypeptide binding]; other site 319224004978 active site 319224004979 catalytic residue [active] 319224004980 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 319224004981 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 319224004982 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224004983 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224004984 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224004985 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224004986 Protein export membrane protein; Region: SecD_SecF; cl14618 319224004987 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 319224004988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224004989 Coenzyme A binding pocket [chemical binding]; other site 319224004990 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 319224004991 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 319224004992 hypothetical protein; Provisional; Region: PRK10621 319224004993 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319224004994 Arginine repressor [Transcription]; Region: ArgR; COG1438 319224004995 Putative amidotransferase; Region: DUF4066; pfam13278 319224004996 conserved cys residue [active] 319224004997 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 319224004998 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 319224004999 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 319224005000 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 319224005001 active site 319224005002 catalytic residues [active] 319224005003 metal binding site [ion binding]; metal-binding site 319224005004 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 319224005005 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319224005006 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 319224005007 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 319224005008 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 319224005009 carboxyltransferase (CT) interaction site; other site 319224005010 biotinylation site [posttranslational modification]; other site 319224005011 enoyl-CoA hydratase; Provisional; Region: PRK05995 319224005012 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 319224005013 substrate binding site [chemical binding]; other site 319224005014 oxyanion hole (OAH) forming residues; other site 319224005015 trimer interface [polypeptide binding]; other site 319224005016 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 319224005017 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 319224005018 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 319224005019 isovaleryl-CoA dehydrogenase; Region: PLN02519 319224005020 substrate binding site [chemical binding]; other site 319224005021 FAD binding site [chemical binding]; other site 319224005022 catalytic base [active] 319224005023 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 319224005024 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 319224005025 DNA binding residues [nucleotide binding] 319224005026 putative dimer interface [polypeptide binding]; other site 319224005027 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 319224005028 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319224005029 acyl-activating enzyme (AAE) consensus motif; other site 319224005030 AMP binding site [chemical binding]; other site 319224005031 active site 319224005032 CoA binding site [chemical binding]; other site 319224005033 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 319224005034 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 319224005035 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 319224005036 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 319224005037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224005038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005039 LysR substrate binding domain; Region: LysR_substrate; pfam03466 319224005040 dimerization interface [polypeptide binding]; other site 319224005041 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 319224005042 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 319224005043 putative active site [active] 319224005044 metal binding site [ion binding]; metal-binding site 319224005045 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 319224005046 UbiA prenyltransferase family; Region: UbiA; pfam01040 319224005047 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 319224005048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224005049 NAD(P) binding site [chemical binding]; other site 319224005050 active site 319224005051 acyl-CoA thioesterase II; Provisional; Region: PRK10526 319224005052 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 319224005053 active site 319224005054 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 319224005055 catalytic triad [active] 319224005056 dimer interface [polypeptide binding]; other site 319224005057 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 319224005058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224005059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005060 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 319224005061 dimerization interface [polypeptide binding]; other site 319224005062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224005063 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224005064 putative substrate translocation pore; other site 319224005065 exopolyphosphatase; Region: exo_poly_only; TIGR03706 319224005066 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 319224005067 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 319224005068 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 319224005069 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 319224005070 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 319224005071 domain interface [polypeptide binding]; other site 319224005072 active site 319224005073 catalytic site [active] 319224005074 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 319224005075 domain interface [polypeptide binding]; other site 319224005076 active site 319224005077 catalytic site [active] 319224005078 putative chaperone; Provisional; Region: PRK11678 319224005079 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 319224005080 nucleotide binding site [chemical binding]; other site 319224005081 putative NEF/HSP70 interaction site [polypeptide binding]; other site 319224005082 SBD interface [polypeptide binding]; other site 319224005083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 319224005084 CreA protein; Region: CreA; pfam05981 319224005085 cystathionine beta-lyase; Provisional; Region: PRK09028 319224005086 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 319224005087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224005088 catalytic residue [active] 319224005089 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 319224005090 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 319224005091 putative ligand binding site [chemical binding]; other site 319224005092 HAMP domain; Region: HAMP; pfam00672 319224005093 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 319224005094 dimer interface [polypeptide binding]; other site 319224005095 phosphorylation site [posttranslational modification] 319224005096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224005097 ATP binding site [chemical binding]; other site 319224005098 Mg2+ binding site [ion binding]; other site 319224005099 G-X-G motif; other site 319224005100 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 319224005101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224005102 active site 319224005103 phosphorylation site [posttranslational modification] 319224005104 intermolecular recognition site; other site 319224005105 dimerization interface [polypeptide binding]; other site 319224005106 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 319224005107 DNA binding site [nucleotide binding] 319224005108 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 319224005109 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 319224005110 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 319224005111 metal ion-dependent adhesion site (MIDAS); other site 319224005112 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 319224005113 active site 319224005114 catalytic site [active] 319224005115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224005116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224005117 metal binding site [ion binding]; metal-binding site 319224005118 active site 319224005119 I-site; other site 319224005120 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 319224005121 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 319224005122 PA/protease or protease-like domain interface [polypeptide binding]; other site 319224005123 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 319224005124 Peptidase family M28; Region: Peptidase_M28; pfam04389 319224005125 metal binding site [ion binding]; metal-binding site 319224005126 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 319224005127 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319224005128 hypothetical protein; Provisional; Region: PRK11027 319224005129 transcriptional regulator HdfR; Provisional; Region: PRK03601 319224005130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005131 LysR substrate binding domain; Region: LysR_substrate; pfam03466 319224005132 dimerization interface [polypeptide binding]; other site 319224005133 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 319224005134 DNA ligase; Provisional; Region: PRK09125 319224005135 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 319224005136 DNA binding site [nucleotide binding] 319224005137 active site 319224005138 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 319224005139 DNA binding site [nucleotide binding] 319224005140 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 319224005141 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319224005142 active site 319224005143 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224005144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224005145 Coenzyme A binding pocket [chemical binding]; other site 319224005146 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 319224005147 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 319224005148 GTP/Mg2+ binding site [chemical binding]; other site 319224005149 G4 box; other site 319224005150 G5 box; other site 319224005151 G1 box; other site 319224005152 Switch I region; other site 319224005153 G2 box; other site 319224005154 G3 box; other site 319224005155 Switch II region; other site 319224005156 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 319224005157 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 319224005158 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 319224005159 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 319224005160 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 319224005161 methionine sulfoxide reductase A; Provisional; Region: PRK14054 319224005162 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 319224005163 dimer interface [polypeptide binding]; other site 319224005164 active site 319224005165 Schiff base residues; other site 319224005166 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 319224005167 Glycoprotease family; Region: Peptidase_M22; pfam00814 319224005168 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 319224005169 Predicted methyltransferase [General function prediction only]; Region: COG4798 319224005170 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319224005171 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319224005172 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 319224005173 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 319224005174 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 319224005175 acyl-activating enzyme (AAE) consensus motif; other site 319224005176 putative AMP binding site [chemical binding]; other site 319224005177 putative active site [active] 319224005178 putative CoA binding site [chemical binding]; other site 319224005179 ribonuclease D; Region: rnd; TIGR01388 319224005180 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 319224005181 catalytic site [active] 319224005182 putative active site [active] 319224005183 putative substrate binding site [chemical binding]; other site 319224005184 HRDC domain; Region: HRDC; pfam00570 319224005185 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 319224005186 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 319224005187 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 319224005188 Switch I; other site 319224005189 Switch II; other site 319224005190 septum formation inhibitor; Reviewed; Region: minC; PRK04804 319224005191 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 319224005192 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 319224005193 YcgL domain; Region: YcgL; pfam05166 319224005194 hypothetical protein; Provisional; Region: PRK05170 319224005195 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 319224005196 substrate binding site [chemical binding]; other site 319224005197 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 319224005198 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 319224005199 ATP binding site [chemical binding]; other site 319224005200 Mg++ binding site [ion binding]; other site 319224005201 motif III; other site 319224005202 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 319224005203 nucleotide binding region [chemical binding]; other site 319224005204 ATP-binding site [chemical binding]; other site 319224005205 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 319224005206 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 319224005207 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 319224005208 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 319224005209 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 319224005210 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 319224005211 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224005212 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224005213 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224005214 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224005215 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 319224005216 Methyltransferase domain; Region: Methyltransf_11; pfam08241 319224005217 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 319224005218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005219 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 319224005220 putative dimerization interface [polypeptide binding]; other site 319224005221 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 319224005222 RNA/DNA hybrid binding site [nucleotide binding]; other site 319224005223 active site 319224005224 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 319224005225 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 319224005226 active site 319224005227 catalytic site [active] 319224005228 substrate binding site [chemical binding]; other site 319224005229 TIGR03503 family protein; Region: TIGR03503 319224005230 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319224005231 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224005232 ligand binding site [chemical binding]; other site 319224005233 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 319224005234 outer membrane lipoprotein; Provisional; Region: PRK11023 319224005235 BON domain; Region: BON; pfam04972 319224005236 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 319224005237 BON domain; Region: BON; pfam04972 319224005238 BON domain; Region: BON; pfam04972 319224005239 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 319224005240 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 319224005241 ligand binding site [chemical binding]; other site 319224005242 flexible hinge region; other site 319224005243 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 319224005244 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 319224005245 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 319224005246 ligand binding site [chemical binding]; other site 319224005247 flexible hinge region; other site 319224005248 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 319224005249 BON domain; Region: BON; pfam04972 319224005250 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 319224005251 PRC-barrel domain; Region: PRC; pfam05239 319224005252 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 319224005253 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 319224005254 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 319224005255 active site 319224005256 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 319224005257 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 319224005258 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 319224005259 putative active site [active] 319224005260 putative dimer interface [polypeptide binding]; other site 319224005261 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 319224005262 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 319224005263 active site 319224005264 DNA binding site [nucleotide binding] 319224005265 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 319224005266 active site 319224005267 catalytic residues [active] 319224005268 metal binding site [ion binding]; metal-binding site 319224005269 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 319224005270 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 319224005271 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 319224005272 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224005273 S-adenosylmethionine binding site [chemical binding]; other site 319224005274 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224005275 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 319224005276 PAS domain; Region: PAS_9; pfam13426 319224005277 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224005278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224005279 metal binding site [ion binding]; metal-binding site 319224005280 active site 319224005281 I-site; other site 319224005282 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 319224005283 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 319224005284 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 319224005285 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319224005286 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 319224005287 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 319224005288 substrate binding pocket [chemical binding]; other site 319224005289 membrane-bound complex binding site; other site 319224005290 hinge residues; other site 319224005291 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 319224005292 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 319224005293 putative dimer interface [polypeptide binding]; other site 319224005294 putative anticodon binding site; other site 319224005295 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 319224005296 homodimer interface [polypeptide binding]; other site 319224005297 motif 1; other site 319224005298 motif 2; other site 319224005299 active site 319224005300 motif 3; other site 319224005301 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 319224005302 putative active site [active] 319224005303 putative CoA binding site [chemical binding]; other site 319224005304 nudix motif; other site 319224005305 metal binding site [ion binding]; metal-binding site 319224005306 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 319224005307 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 319224005308 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319224005309 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 319224005310 Fumarase C-terminus; Region: Fumerase_C; pfam05683 319224005311 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 319224005312 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224005313 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224005314 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224005315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224005316 Coenzyme A binding pocket [chemical binding]; other site 319224005317 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 319224005318 putative active site [active] 319224005319 Zn binding site [ion binding]; other site 319224005320 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 319224005321 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 319224005322 putative catalytic cysteine [active] 319224005323 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 319224005324 putative active site [active] 319224005325 metal binding site [ion binding]; metal-binding site 319224005326 hypothetical protein; Provisional; Region: PRK11111 319224005327 Nitrate and nitrite sensing; Region: NIT; pfam08376 319224005328 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 319224005329 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224005330 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224005331 dimer interface [polypeptide binding]; other site 319224005332 putative CheW interface [polypeptide binding]; other site 319224005333 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 319224005334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224005335 putative substrate translocation pore; other site 319224005336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224005337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224005338 putative substrate translocation pore; other site 319224005339 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 319224005340 Beta-lactamase; Region: Beta-lactamase; pfam00144 319224005341 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224005342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005343 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 319224005344 putative dimerization interface [polypeptide binding]; other site 319224005345 putative effector binding pocket; other site 319224005346 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 319224005347 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 319224005348 CRISPR-associated endonuclease Cas3-HD; Region: cas3_HD; TIGR01596 319224005349 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319224005350 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 319224005351 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 319224005352 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 319224005353 DEAD/DEAH box helicase; Region: DEAD; pfam00270 319224005354 DEAD_2; Region: DEAD_2; pfam06733 319224005355 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 319224005356 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 319224005357 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 319224005358 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 319224005359 N-terminal plug; other site 319224005360 ligand-binding site [chemical binding]; other site 319224005361 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224005362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224005363 dimer interface [polypeptide binding]; other site 319224005364 putative CheW interface [polypeptide binding]; other site 319224005365 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 319224005366 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 319224005367 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 319224005368 dimer interface [polypeptide binding]; other site 319224005369 motif 1; other site 319224005370 active site 319224005371 motif 2; other site 319224005372 motif 3; other site 319224005373 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 319224005374 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 319224005375 putative tRNA-binding site [nucleotide binding]; other site 319224005376 B3/4 domain; Region: B3_4; pfam03483 319224005377 tRNA synthetase B5 domain; Region: B5; smart00874 319224005378 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 319224005379 dimer interface [polypeptide binding]; other site 319224005380 motif 1; other site 319224005381 motif 3; other site 319224005382 motif 2; other site 319224005383 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 319224005384 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 319224005385 IHF dimer interface [polypeptide binding]; other site 319224005386 IHF - DNA interface [nucleotide binding]; other site 319224005387 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 319224005388 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 319224005389 putative acyl-acceptor binding pocket; other site 319224005390 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 319224005391 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 319224005392 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 319224005393 dimerization interface [polypeptide binding]; other site 319224005394 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 319224005395 ATP binding site [chemical binding]; other site 319224005396 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 319224005397 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 319224005398 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 319224005399 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 319224005400 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 319224005401 CoA binding domain; Region: CoA_binding_2; pfam13380 319224005402 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 319224005403 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 319224005404 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 319224005405 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224005406 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224005407 ABC transporter; Region: ABC_tran_2; pfam12848 319224005408 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224005409 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 319224005410 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 319224005411 N-terminal plug; other site 319224005412 ligand-binding site [chemical binding]; other site 319224005413 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 319224005414 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 319224005415 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 319224005416 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 319224005417 endonuclease III; Provisional; Region: PRK10702 319224005418 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319224005419 minor groove reading motif; other site 319224005420 helix-hairpin-helix signature motif; other site 319224005421 substrate binding pocket [chemical binding]; other site 319224005422 active site 319224005423 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 319224005424 electron transport complex RsxE subunit; Provisional; Region: PRK12405 319224005425 electron transport complex protein RnfG; Validated; Region: PRK01908 319224005426 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 319224005427 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 319224005428 SLBB domain; Region: SLBB; pfam10531 319224005429 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 319224005430 ferredoxin; Provisional; Region: PRK08764 319224005431 Putative Fe-S cluster; Region: FeS; pfam04060 319224005432 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 319224005433 electron transport complex protein RsxA; Provisional; Region: PRK05151 319224005434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224005435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224005436 active site 319224005437 I-site; other site 319224005438 metal binding site [ion binding]; metal-binding site 319224005439 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 319224005440 excinuclease ABC subunit B; Provisional; Region: PRK05298 319224005441 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 319224005442 ATP binding site [chemical binding]; other site 319224005443 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 319224005444 nucleotide binding region [chemical binding]; other site 319224005445 ATP-binding site [chemical binding]; other site 319224005446 Ultra-violet resistance protein B; Region: UvrB; pfam12344 319224005447 UvrB/uvrC motif; Region: UVR; pfam02151 319224005448 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 319224005449 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 319224005450 Ligand Binding Site [chemical binding]; other site 319224005451 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 319224005452 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 319224005453 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 319224005454 Protein of unknown function (DUF406); Region: DUF406; pfam04175 319224005455 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224005456 GAF domain; Region: GAF; pfam01590 319224005457 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 319224005458 PAS fold; Region: PAS_3; pfam08447 319224005459 putative active site [active] 319224005460 heme pocket [chemical binding]; other site 319224005461 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224005462 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224005463 metal binding site [ion binding]; metal-binding site 319224005464 active site 319224005465 I-site; other site 319224005466 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 319224005467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 319224005468 SEC-C motif; Region: SEC-C; pfam02810 319224005469 SEC-C motif; Region: SEC-C; pfam02810 319224005470 SnoaL-like domain; Region: SnoaL_3; pfam13474 319224005471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 319224005472 Smr domain; Region: Smr; pfam01713 319224005473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224005474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224005475 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 319224005476 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 319224005477 active site 319224005478 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 319224005479 pyruvate kinase; Provisional; Region: PRK05826 319224005480 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 319224005481 domain interfaces; other site 319224005482 active site 319224005483 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 319224005484 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 319224005485 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 319224005486 putative active site [active] 319224005487 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 319224005488 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 319224005489 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 319224005490 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 319224005491 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 319224005492 putative active site [active] 319224005493 phosphogluconate dehydratase; Validated; Region: PRK09054 319224005494 6-phosphogluconate dehydratase; Region: edd; TIGR01196 319224005495 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 319224005496 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 319224005497 active site 319224005498 intersubunit interface [polypeptide binding]; other site 319224005499 catalytic residue [active] 319224005500 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 319224005501 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 319224005502 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 319224005503 5'-nucleotidase; Provisional; Region: PRK03826 319224005504 aminotransferase AlaT; Validated; Region: PRK09265 319224005505 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 319224005506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224005507 homodimer interface [polypeptide binding]; other site 319224005508 catalytic residue [active] 319224005509 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 319224005510 elongation factor P; Validated; Region: PRK00529 319224005511 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 319224005512 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 319224005513 RNA binding site [nucleotide binding]; other site 319224005514 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 319224005515 RNA binding site [nucleotide binding]; other site 319224005516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 319224005517 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 319224005518 flavodoxin FldA; Validated; Region: PRK09267 319224005519 LexA regulated protein; Provisional; Region: PRK11675 319224005520 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 319224005521 acyl-CoA esterase; Provisional; Region: PRK10673 319224005522 PGAP1-like protein; Region: PGAP1; pfam07819 319224005523 SeqA protein; Region: SeqA; pfam03925 319224005524 phosphoglucomutase; Validated; Region: PRK07564 319224005525 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 319224005526 active site 319224005527 substrate binding site [chemical binding]; other site 319224005528 metal binding site [ion binding]; metal-binding site 319224005529 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 319224005530 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 319224005531 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 319224005532 putative active site [active] 319224005533 Zn binding site [ion binding]; other site 319224005534 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 319224005535 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 319224005536 tetramer interface [polypeptide binding]; other site 319224005537 TPP-binding site [chemical binding]; other site 319224005538 heterodimer interface [polypeptide binding]; other site 319224005539 phosphorylation loop region [posttranslational modification] 319224005540 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 319224005541 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 319224005542 alpha subunit interface [polypeptide binding]; other site 319224005543 TPP binding site [chemical binding]; other site 319224005544 heterodimer interface [polypeptide binding]; other site 319224005545 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319224005546 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 319224005547 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 319224005548 E3 interaction surface; other site 319224005549 lipoyl attachment site [posttranslational modification]; other site 319224005550 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 319224005551 E3 interaction surface; other site 319224005552 lipoyl attachment site [posttranslational modification]; other site 319224005553 e3 binding domain; Region: E3_binding; pfam02817 319224005554 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 319224005555 quinolinate synthetase; Provisional; Region: PRK09375 319224005556 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 319224005557 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 319224005558 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 319224005559 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 319224005560 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 319224005561 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 319224005562 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 319224005563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 319224005564 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 319224005565 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 319224005566 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 319224005567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 319224005568 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 319224005569 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 319224005570 5S rRNA interface [nucleotide binding]; other site 319224005571 CTC domain interface [polypeptide binding]; other site 319224005572 L16 interface [polypeptide binding]; other site 319224005573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 319224005574 Family of unknown function (DUF490); Region: DUF490; pfam04357 319224005575 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 319224005576 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319224005577 Surface antigen; Region: Bac_surface_Ag; pfam01103 319224005578 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 319224005579 catalytic nucleophile [active] 319224005580 FOG: CBS domain [General function prediction only]; Region: COG0517 319224005581 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 319224005582 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 319224005583 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 319224005584 ATP binding site [chemical binding]; other site 319224005585 putative Mg++ binding site [ion binding]; other site 319224005586 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 319224005587 nucleotide binding region [chemical binding]; other site 319224005588 ATP-binding site [chemical binding]; other site 319224005589 Helicase associated domain (HA2); Region: HA2; pfam04408 319224005590 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 319224005591 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 319224005592 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 319224005593 NapD protein; Region: NapD; pfam03927 319224005594 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 319224005595 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 319224005596 [4Fe-4S] binding site [ion binding]; other site 319224005597 molybdopterin cofactor binding site; other site 319224005598 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 319224005599 molybdopterin cofactor binding site; other site 319224005600 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 319224005601 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 319224005602 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 319224005603 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 319224005604 Uncharacterized conserved protein [Function unknown]; Region: COG2850 319224005605 Cupin-like domain; Region: Cupin_8; pfam13621 319224005606 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 319224005607 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 319224005608 transmembrane helices; other site 319224005609 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224005610 Helix-turn-helix domain; Region: HTH_18; pfam12833 319224005611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224005612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 319224005613 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 319224005614 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 319224005615 putative RNA binding site [nucleotide binding]; other site 319224005616 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 319224005617 Uncharacterized conserved protein [Function unknown]; Region: COG2128 319224005618 Helix-turn-helix domain; Region: HTH_18; pfam12833 319224005619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224005620 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 319224005621 Ligand Binding Site [chemical binding]; other site 319224005622 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 319224005623 Family of unknown function (DUF633); Region: DUF633; pfam04816 319224005624 PAS fold; Region: PAS_4; pfam08448 319224005625 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 319224005626 putative active site [active] 319224005627 heme pocket [chemical binding]; other site 319224005628 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 319224005629 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319224005630 putative active site [active] 319224005631 heme pocket [chemical binding]; other site 319224005632 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 319224005633 putative active site [active] 319224005634 heme pocket [chemical binding]; other site 319224005635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224005636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224005637 metal binding site [ion binding]; metal-binding site 319224005638 active site 319224005639 I-site; other site 319224005640 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 319224005641 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 319224005642 nudix motif; other site 319224005643 DTW domain; Region: DTW; cl01221 319224005644 Haemolysin-III related; Region: HlyIII; cl03831 319224005645 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 319224005646 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 319224005647 ThiC-associated domain; Region: ThiC-associated; pfam13667 319224005648 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 319224005649 Phosphomethylpyrimidine kinase; Region: Phos_pyr_kin; pfam08543 319224005650 ATP binding site [chemical binding]; other site 319224005651 substrate binding site [chemical binding]; other site 319224005652 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 319224005653 thiamine phosphate binding site [chemical binding]; other site 319224005654 active site 319224005655 pyrophosphate binding site [ion binding]; other site 319224005656 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 319224005657 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 319224005658 ATP binding site [chemical binding]; other site 319224005659 substrate interface [chemical binding]; other site 319224005660 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 319224005661 thiS-thiF/thiG interaction site; other site 319224005662 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 319224005663 ThiS interaction site; other site 319224005664 putative active site [active] 319224005665 tetramer interface [polypeptide binding]; other site 319224005666 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 319224005667 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 319224005668 FeS/SAM binding site; other site 319224005669 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 319224005670 SprA-related family; Region: SprA-related; pfam12118 319224005671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224005672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005673 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 319224005674 dimerization interface [polypeptide binding]; other site 319224005675 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 319224005676 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319224005677 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224005678 S-adenosylmethionine binding site [chemical binding]; other site 319224005679 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224005680 S-adenosylmethionine binding site [chemical binding]; other site 319224005681 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 319224005682 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224005683 substrate binding pocket [chemical binding]; other site 319224005684 membrane-bound complex binding site; other site 319224005685 hinge residues; other site 319224005686 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224005687 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 319224005688 substrate binding pocket [chemical binding]; other site 319224005689 membrane-bound complex binding site; other site 319224005690 hinge residues; other site 319224005691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224005692 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 319224005693 substrate binding pocket [chemical binding]; other site 319224005694 membrane-bound complex binding site; other site 319224005695 hinge residues; other site 319224005696 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224005697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224005698 metal binding site [ion binding]; metal-binding site 319224005699 active site 319224005700 I-site; other site 319224005701 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 319224005702 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 319224005703 dimer interface [polypeptide binding]; other site 319224005704 anticodon binding site; other site 319224005705 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 319224005706 homodimer interface [polypeptide binding]; other site 319224005707 motif 1; other site 319224005708 active site 319224005709 motif 2; other site 319224005710 GAD domain; Region: GAD; pfam02938 319224005711 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 319224005712 active site 319224005713 motif 3; other site 319224005714 hypothetical protein; Validated; Region: PRK00110 319224005715 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 319224005716 active site 319224005717 putative DNA-binding cleft [nucleotide binding]; other site 319224005718 dimer interface [polypeptide binding]; other site 319224005719 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 319224005720 RuvA N terminal domain; Region: RuvA_N; pfam01330 319224005721 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 319224005722 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 319224005723 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 319224005724 Walker A motif; other site 319224005725 ATP binding site [chemical binding]; other site 319224005726 Walker B motif; other site 319224005727 arginine finger; other site 319224005728 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 319224005729 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224005730 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 319224005731 N-terminal plug; other site 319224005732 ligand-binding site [chemical binding]; other site 319224005733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224005734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224005735 active site 319224005736 phosphorylation site [posttranslational modification] 319224005737 intermolecular recognition site; other site 319224005738 dimerization interface [polypeptide binding]; other site 319224005739 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 319224005740 DNA binding site [nucleotide binding] 319224005741 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 319224005742 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 319224005743 putative active site [active] 319224005744 Zn binding site [ion binding]; other site 319224005745 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 319224005746 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 319224005747 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 319224005748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224005749 homodimer interface [polypeptide binding]; other site 319224005750 catalytic residue [active] 319224005751 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 319224005752 phosphate binding site [ion binding]; other site 319224005753 putative substrate binding pocket [chemical binding]; other site 319224005754 dimer interface [polypeptide binding]; other site 319224005755 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 319224005756 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 319224005757 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 319224005758 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 319224005759 Ligand Binding Site [chemical binding]; other site 319224005760 universal stress protein UspE; Provisional; Region: PRK11175 319224005761 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 319224005762 Ligand Binding Site [chemical binding]; other site 319224005763 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 319224005764 Ligand Binding Site [chemical binding]; other site 319224005765 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 319224005766 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 319224005767 ligand binding site [chemical binding]; other site 319224005768 flexible hinge region; other site 319224005769 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 319224005770 putative switch regulator; other site 319224005771 non-specific DNA interactions [nucleotide binding]; other site 319224005772 DNA binding site [nucleotide binding] 319224005773 sequence specific DNA binding site [nucleotide binding]; other site 319224005774 putative cAMP binding site [chemical binding]; other site 319224005775 Family description; Region: DsbD_2; pfam13386 319224005776 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 319224005777 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 319224005778 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319224005779 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 319224005780 metal-binding site [ion binding] 319224005781 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224005782 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319224005783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 319224005784 FixH; Region: FixH; pfam05751 319224005785 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 319224005786 Cytochrome c; Region: Cytochrom_C; pfam00034 319224005787 Cytochrome c; Region: Cytochrom_C; pfam00034 319224005788 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 319224005789 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 319224005790 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 319224005791 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 319224005792 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 319224005793 Low-spin heme binding site [chemical binding]; other site 319224005794 Putative water exit pathway; other site 319224005795 Binuclear center (active site) [active] 319224005796 Putative proton exit pathway; other site 319224005797 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 319224005798 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 319224005799 Transposase; Region: HTH_Tnp_1; cl17663 319224005800 putative transposase OrfB; Reviewed; Region: PHA02517 319224005801 HTH-like domain; Region: HTH_21; pfam13276 319224005802 Integrase core domain; Region: rve; pfam00665 319224005803 Integrase core domain; Region: rve_3; pfam13683 319224005804 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 319224005805 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 319224005806 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224005807 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319224005808 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 319224005809 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 319224005810 carboxyltransferase (CT) interaction site; other site 319224005811 biotinylation site [posttranslational modification]; other site 319224005812 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224005813 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319224005814 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224005815 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 319224005816 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 319224005817 DNA binding residues [nucleotide binding] 319224005818 dimer interface [polypeptide binding]; other site 319224005819 putative metal binding site [ion binding]; other site 319224005820 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224005821 hypothetical protein; Provisional; Region: PRK02237 319224005822 CopC domain; Region: CopC; cl01012 319224005823 putative metal dependent hydrolase; Provisional; Region: PRK11598 319224005824 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 319224005825 Sulfatase; Region: Sulfatase; pfam00884 319224005826 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 319224005827 Sulfatase; Region: Sulfatase; pfam00884 319224005828 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 319224005829 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224005830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224005831 active site 319224005832 phosphorylation site [posttranslational modification] 319224005833 intermolecular recognition site; other site 319224005834 dimerization interface [polypeptide binding]; other site 319224005835 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 319224005836 DNA binding site [nucleotide binding] 319224005837 sensor protein QseC; Provisional; Region: PRK10337 319224005838 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 319224005839 dimer interface [polypeptide binding]; other site 319224005840 phosphorylation site [posttranslational modification] 319224005841 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224005842 ATP binding site [chemical binding]; other site 319224005843 Mg2+ binding site [ion binding]; other site 319224005844 G-X-G motif; other site 319224005845 Sodium Bile acid symporter family; Region: SBF; cl17470 319224005846 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 319224005847 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 319224005848 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 319224005849 DNA binding site [nucleotide binding] 319224005850 dimer interface [polypeptide binding]; other site 319224005851 active site 319224005852 Int/Topo IB signature motif; other site 319224005853 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 319224005854 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224005855 Zn2+ binding site [ion binding]; other site 319224005856 Mg2+ binding site [ion binding]; other site 319224005857 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 319224005858 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 319224005859 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 319224005860 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 319224005861 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 319224005862 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 319224005863 catalytic residues [active] 319224005864 catalytic nucleophile [active] 319224005865 Presynaptic Site I dimer interface [polypeptide binding]; other site 319224005866 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319224005867 Synaptic Flat tetramer interface [polypeptide binding]; other site 319224005868 Synaptic Site I dimer interface [polypeptide binding]; other site 319224005869 DNA binding site [nucleotide binding] 319224005870 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 319224005871 DNA-binding interface [nucleotide binding]; DNA binding site 319224005872 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 319224005873 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 319224005874 Ligand Binding Site [chemical binding]; other site 319224005875 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 319224005876 Ligand Binding Site [chemical binding]; other site 319224005877 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 319224005878 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319224005879 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319224005880 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 319224005881 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319224005882 putative transporter; Provisional; Region: PRK11043 319224005883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224005884 putative substrate translocation pore; other site 319224005885 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 319224005886 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224005887 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 319224005888 dimerization interface [polypeptide binding]; other site 319224005889 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 319224005890 YccA-like proteins; Region: YccA_like; cd10433 319224005891 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 319224005892 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 319224005893 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 319224005894 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 319224005895 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 319224005896 seryl-tRNA synthetase; Provisional; Region: PRK05431 319224005897 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 319224005898 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 319224005899 dimer interface [polypeptide binding]; other site 319224005900 active site 319224005901 motif 1; other site 319224005902 motif 2; other site 319224005903 motif 3; other site 319224005904 camphor resistance protein CrcB; Provisional; Region: PRK14197 319224005905 recombination factor protein RarA; Reviewed; Region: PRK13342 319224005906 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 319224005907 Walker A motif; other site 319224005908 ATP binding site [chemical binding]; other site 319224005909 Walker B motif; other site 319224005910 arginine finger; other site 319224005911 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 319224005912 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 319224005913 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 319224005914 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 319224005915 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 319224005916 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 319224005917 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 319224005918 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 319224005919 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 319224005920 putative DNA binding site [nucleotide binding]; other site 319224005921 putative Zn2+ binding site [ion binding]; other site 319224005922 AsnC family; Region: AsnC_trans_reg; pfam01037 319224005923 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 319224005924 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 319224005925 hexamer interface [polypeptide binding]; other site 319224005926 ligand binding site [chemical binding]; other site 319224005927 putative active site [active] 319224005928 NAD(P) binding site [chemical binding]; other site 319224005929 thioredoxin reductase; Provisional; Region: PRK10262 319224005930 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224005931 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224005932 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 319224005933 23S rRNA binding site [nucleotide binding]; other site 319224005934 L21 binding site [polypeptide binding]; other site 319224005935 L13 binding site [polypeptide binding]; other site 319224005936 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 319224005937 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 319224005938 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 319224005939 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 319224005940 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 319224005941 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 319224005942 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 319224005943 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 319224005944 active site 319224005945 dimer interface [polypeptide binding]; other site 319224005946 motif 1; other site 319224005947 motif 2; other site 319224005948 motif 3; other site 319224005949 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 319224005950 anticodon binding site; other site 319224005951 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 319224005952 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 319224005953 Lumazine binding domain; Region: Lum_binding; pfam00677 319224005954 Lumazine binding domain; Region: Lum_binding; pfam00677 319224005955 multidrug efflux protein; Reviewed; Region: PRK01766 319224005956 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 319224005957 cation binding site [ion binding]; other site 319224005958 ecotin; Provisional; Region: PRK03719 319224005959 secondary substrate binding site; other site 319224005960 primary substrate binding site; other site 319224005961 inhibition loop; other site 319224005962 dimerization interface [polypeptide binding]; other site 319224005963 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319224005964 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 319224005965 ATP binding site [chemical binding]; other site 319224005966 putative Mg++ binding site [ion binding]; other site 319224005967 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 319224005968 nucleotide binding region [chemical binding]; other site 319224005969 ATP-binding site [chemical binding]; other site 319224005970 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 319224005971 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 319224005972 Uncharacterized conserved protein [Function unknown]; Region: COG3148 319224005973 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 319224005974 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 319224005975 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 319224005976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224005977 putative substrate translocation pore; other site 319224005978 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 319224005979 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 319224005980 domain interface [polypeptide binding]; other site 319224005981 putative active site [active] 319224005982 catalytic site [active] 319224005983 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 319224005984 domain interface [polypeptide binding]; other site 319224005985 putative active site [active] 319224005986 catalytic site [active] 319224005987 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 319224005988 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 319224005989 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 319224005990 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 319224005991 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 319224005992 active site 319224005993 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 319224005994 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 319224005995 short chain dehydrogenase; Provisional; Region: PRK07576 319224005996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224005997 NAD(P) binding site [chemical binding]; other site 319224005998 active site 319224005999 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 319224006000 active site 319224006001 dimer interface [polypeptide binding]; other site 319224006002 tetratricopeptide repeat protein; Provisional; Region: PRK11788 319224006003 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 319224006004 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 319224006005 IHF dimer interface [polypeptide binding]; other site 319224006006 IHF - DNA interface [nucleotide binding]; other site 319224006007 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 319224006008 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 319224006009 RNA binding site [nucleotide binding]; other site 319224006010 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 319224006011 RNA binding site [nucleotide binding]; other site 319224006012 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 319224006013 RNA binding site [nucleotide binding]; other site 319224006014 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 319224006015 RNA binding site [nucleotide binding]; other site 319224006016 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 319224006017 RNA binding site [nucleotide binding]; other site 319224006018 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 319224006019 RNA binding site [nucleotide binding]; other site 319224006020 cytidylate kinase; Provisional; Region: cmk; PRK00023 319224006021 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 319224006022 CMP-binding site; other site 319224006023 The sites determining sugar specificity; other site 319224006024 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 319224006025 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 319224006026 hinge; other site 319224006027 active site 319224006028 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 319224006029 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 319224006030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224006031 homodimer interface [polypeptide binding]; other site 319224006032 catalytic residue [active] 319224006033 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 319224006034 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 319224006035 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 319224006036 substrate binding site [chemical binding]; other site 319224006037 active site 319224006038 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319224006039 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319224006040 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 319224006041 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 319224006042 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 319224006043 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 319224006044 active site 319224006045 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 319224006046 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 319224006047 substrate binding site [chemical binding]; other site 319224006048 active site 319224006049 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 319224006050 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 319224006051 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 319224006052 active site 319224006053 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 319224006054 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 319224006055 dimerization interface [polypeptide binding]; other site 319224006056 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224006057 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224006058 dimer interface [polypeptide binding]; other site 319224006059 putative CheW interface [polypeptide binding]; other site 319224006060 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 319224006061 active site 319224006062 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 319224006063 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 319224006064 TM-ABC transporter signature motif; other site 319224006065 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 319224006066 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 319224006067 TM-ABC transporter signature motif; other site 319224006068 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 319224006069 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 319224006070 Walker A/P-loop; other site 319224006071 ATP binding site [chemical binding]; other site 319224006072 Q-loop/lid; other site 319224006073 ABC transporter signature motif; other site 319224006074 Walker B; other site 319224006075 D-loop; other site 319224006076 H-loop/switch region; other site 319224006077 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 319224006078 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 319224006079 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 319224006080 putative ligand binding site [chemical binding]; other site 319224006081 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 319224006082 active site 319224006083 catalytic residues [active] 319224006084 short chain dehydrogenase; Provisional; Region: PRK12939 319224006085 classical (c) SDRs; Region: SDR_c; cd05233 319224006086 NAD(P) binding site [chemical binding]; other site 319224006087 active site 319224006088 dihydroxy-acid dehydratase; Validated; Region: PRK06131 319224006089 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 319224006090 substrate binding site [chemical binding]; other site 319224006091 active site 319224006092 Transcriptional regulators [Transcription]; Region: FadR; COG2186 319224006093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224006094 DNA-binding site [nucleotide binding]; DNA binding site 319224006095 FCD domain; Region: FCD; pfam07729 319224006096 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 319224006097 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 319224006098 active site 319224006099 motif I; other site 319224006100 motif II; other site 319224006101 L-arabinose isomerase; Provisional; Region: PRK02929 319224006102 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 319224006103 hexamer (dimer of trimers) interface [polypeptide binding]; other site 319224006104 trimer interface [polypeptide binding]; other site 319224006105 substrate binding site [chemical binding]; other site 319224006106 Mn binding site [ion binding]; other site 319224006107 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 319224006108 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 319224006109 intersubunit interface [polypeptide binding]; other site 319224006110 active site 319224006111 Zn2+ binding site [ion binding]; other site 319224006112 ribulokinase; Provisional; Region: PRK04123 319224006113 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 319224006114 N- and C-terminal domain interface [polypeptide binding]; other site 319224006115 active site 319224006116 MgATP binding site [chemical binding]; other site 319224006117 catalytic site [active] 319224006118 metal binding site [ion binding]; metal-binding site 319224006119 carbohydrate binding site [chemical binding]; other site 319224006120 homodimer interface [polypeptide binding]; other site 319224006121 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 319224006122 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224006123 catalytic residue [active] 319224006124 DNA gyrase subunit A; Validated; Region: PRK05560 319224006125 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 319224006126 CAP-like domain; other site 319224006127 active site 319224006128 primary dimer interface [polypeptide binding]; other site 319224006129 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319224006130 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319224006131 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319224006132 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319224006133 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319224006134 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319224006135 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 319224006136 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224006137 S-adenosylmethionine binding site [chemical binding]; other site 319224006138 phosphoglycolate phosphatase; Provisional; Region: PRK13222 319224006139 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 319224006140 active site 319224006141 motif I; other site 319224006142 motif II; other site 319224006143 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 319224006144 ATP cone domain; Region: ATP-cone; pfam03477 319224006145 Class I ribonucleotide reductase; Region: RNR_I; cd01679 319224006146 active site 319224006147 dimer interface [polypeptide binding]; other site 319224006148 catalytic residues [active] 319224006149 effector binding site; other site 319224006150 R2 peptide binding site; other site 319224006151 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 319224006152 dimer interface [polypeptide binding]; other site 319224006153 putative radical transfer pathway; other site 319224006154 diiron center [ion binding]; other site 319224006155 tyrosyl radical; other site 319224006156 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 319224006157 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 319224006158 catalytic loop [active] 319224006159 iron binding site [ion binding]; other site 319224006160 YCII-related domain; Region: YCII; pfam03795 319224006161 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 319224006162 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 319224006163 active site 319224006164 FMN binding site [chemical binding]; other site 319224006165 2,4-decadienoyl-CoA binding site; other site 319224006166 catalytic residue [active] 319224006167 4Fe-4S cluster binding site [ion binding]; other site 319224006168 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 319224006169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224006170 protease 4; Provisional; Region: PRK10949 319224006171 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 319224006172 tandem repeat interface [polypeptide binding]; other site 319224006173 oligomer interface [polypeptide binding]; other site 319224006174 active site residues [active] 319224006175 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 319224006176 tandem repeat interface [polypeptide binding]; other site 319224006177 oligomer interface [polypeptide binding]; other site 319224006178 active site residues [active] 319224006179 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 319224006180 active site 319224006181 homodimer interface [polypeptide binding]; other site 319224006182 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319224006183 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 319224006184 Ligand binding site; other site 319224006185 DXD motif; other site 319224006186 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 319224006187 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 319224006188 sensor protein QseC; Provisional; Region: PRK10337 319224006189 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 319224006190 dimer interface [polypeptide binding]; other site 319224006191 phosphorylation site [posttranslational modification] 319224006192 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224006193 ATP binding site [chemical binding]; other site 319224006194 Mg2+ binding site [ion binding]; other site 319224006195 G-X-G motif; other site 319224006196 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224006197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224006198 active site 319224006199 phosphorylation site [posttranslational modification] 319224006200 intermolecular recognition site; other site 319224006201 dimerization interface [polypeptide binding]; other site 319224006202 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 319224006203 DNA binding site [nucleotide binding] 319224006204 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 319224006205 ApbE family; Region: ApbE; pfam02424 319224006206 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 319224006207 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 319224006208 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 319224006209 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224006210 catalytic residues [active] 319224006211 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 319224006212 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 319224006213 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 319224006214 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 319224006215 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 319224006216 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 319224006217 putative substrate-binding site; other site 319224006218 nickel binding site [ion binding]; other site 319224006219 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 319224006220 Acylphosphatase; Region: Acylphosphatase; pfam00708 319224006221 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 319224006222 HypF finger; Region: zf-HYPF; pfam07503 319224006223 HypF finger; Region: zf-HYPF; pfam07503 319224006224 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 319224006225 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 319224006226 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 319224006227 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 319224006228 TrkA-N domain; Region: TrkA_N; pfam02254 319224006229 universal stress protein UspE; Provisional; Region: PRK11175 319224006230 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 319224006231 Ligand Binding Site [chemical binding]; other site 319224006232 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 319224006233 Ligand Binding Site [chemical binding]; other site 319224006234 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224006235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224006236 metal binding site [ion binding]; metal-binding site 319224006237 active site 319224006238 I-site; other site 319224006239 putative metal dependent hydrolase; Provisional; Region: PRK11598 319224006240 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 319224006241 Sulfatase; Region: Sulfatase; pfam00884 319224006242 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 319224006243 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224006244 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 319224006245 MarR family; Region: MarR; pfam01047 319224006246 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224006247 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319224006248 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319224006249 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 319224006250 dimer interface [polypeptide binding]; other site 319224006251 active site 319224006252 metal binding site [ion binding]; metal-binding site 319224006253 glutathione binding site [chemical binding]; other site 319224006254 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 319224006255 TMAO/DMSO reductase; Reviewed; Region: PRK05363 319224006256 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 319224006257 Moco binding site; other site 319224006258 metal coordination site [ion binding]; other site 319224006259 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 319224006260 DNA recombination protein RmuC; Provisional; Region: PRK10361 319224006261 RmuC family; Region: RmuC; pfam02646 319224006262 lytic murein transglycosylase; Provisional; Region: PRK11619 319224006263 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 319224006264 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224006265 catalytic residue [active] 319224006266 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 319224006267 MoxR-like ATPases [General function prediction only]; Region: COG0714 319224006268 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 319224006269 Walker A motif; other site 319224006270 ATP binding site [chemical binding]; other site 319224006271 Walker B motif; other site 319224006272 arginine finger; other site 319224006273 Protein of unknown function DUF58; Region: DUF58; pfam01882 319224006274 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 319224006275 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 319224006276 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 319224006277 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 319224006278 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 319224006279 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 319224006280 Part of AAA domain; Region: AAA_19; pfam13245 319224006281 Family description; Region: UvrD_C_2; pfam13538 319224006282 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 319224006283 AAA domain; Region: AAA_30; pfam13604 319224006284 Family description; Region: UvrD_C_2; pfam13538 319224006285 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 319224006286 active site 319224006287 catalytic site [active] 319224006288 substrate binding site [chemical binding]; other site 319224006289 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 319224006290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 319224006291 Cache domain; Region: Cache_2; cl07034 319224006292 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 319224006293 dimerization interface [polypeptide binding]; other site 319224006294 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224006295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224006296 dimer interface [polypeptide binding]; other site 319224006297 putative CheW interface [polypeptide binding]; other site 319224006298 Uncharacterized conserved protein [Function unknown]; Region: COG3603 319224006299 Family description; Region: ACT_7; pfam13840 319224006300 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 319224006301 dimerization domain swap beta strand [polypeptide binding]; other site 319224006302 regulatory protein interface [polypeptide binding]; other site 319224006303 active site 319224006304 regulatory phosphorylation site [posttranslational modification]; other site 319224006305 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 319224006306 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 319224006307 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 319224006308 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 319224006309 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 319224006310 HPr interaction site; other site 319224006311 glycerol kinase (GK) interaction site [polypeptide binding]; other site 319224006312 active site 319224006313 phosphorylation site [posttranslational modification] 319224006314 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 319224006315 Cache domain; Region: Cache_1; pfam02743 319224006316 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 319224006317 dimerization interface [polypeptide binding]; other site 319224006318 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224006319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224006320 dimer interface [polypeptide binding]; other site 319224006321 putative CheW interface [polypeptide binding]; other site 319224006322 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 319224006323 ArsC family; Region: ArsC; pfam03960 319224006324 putative catalytic residues [active] 319224006325 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 319224006326 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 319224006327 metal binding site [ion binding]; metal-binding site 319224006328 dimer interface [polypeptide binding]; other site 319224006329 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 319224006330 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 319224006331 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 319224006332 active site clefts [active] 319224006333 zinc binding site [ion binding]; other site 319224006334 dimer interface [polypeptide binding]; other site 319224006335 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 319224006336 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 319224006337 Ligand binding site; other site 319224006338 oligomer interface; other site 319224006339 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 319224006340 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 319224006341 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 319224006342 active site residue [active] 319224006343 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 319224006344 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319224006345 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319224006346 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 319224006347 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 319224006348 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 319224006349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224006350 DNA-binding site [nucleotide binding]; DNA binding site 319224006351 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 319224006352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224006353 homodimer interface [polypeptide binding]; other site 319224006354 catalytic residue [active] 319224006355 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 319224006356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224006357 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 319224006358 putative substrate translocation pore; other site 319224006359 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 319224006360 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 319224006361 PYR/PP interface [polypeptide binding]; other site 319224006362 dimer interface [polypeptide binding]; other site 319224006363 TPP binding site [chemical binding]; other site 319224006364 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 319224006365 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 319224006366 TPP-binding site [chemical binding]; other site 319224006367 dimer interface [polypeptide binding]; other site 319224006368 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 319224006369 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 319224006370 putative valine binding site [chemical binding]; other site 319224006371 dimer interface [polypeptide binding]; other site 319224006372 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 319224006373 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 319224006374 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 319224006375 putative dimer interface [polypeptide binding]; other site 319224006376 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 319224006377 active site 319224006378 multimer interface [polypeptide binding]; other site 319224006379 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 319224006380 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 319224006381 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319224006382 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 319224006383 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 319224006384 catalytic loop [active] 319224006385 iron binding site [ion binding]; other site 319224006386 chaperone protein HscA; Provisional; Region: hscA; PRK05183 319224006387 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 319224006388 nucleotide binding site [chemical binding]; other site 319224006389 putative NEF/HSP70 interaction site [polypeptide binding]; other site 319224006390 SBD interface [polypeptide binding]; other site 319224006391 co-chaperone HscB; Provisional; Region: hscB; PRK05014 319224006392 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 319224006393 HSP70 interaction site [polypeptide binding]; other site 319224006394 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 319224006395 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 319224006396 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 319224006397 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 319224006398 trimerization site [polypeptide binding]; other site 319224006399 active site 319224006400 cysteine desulfurase; Provisional; Region: PRK14012 319224006401 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 319224006402 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224006403 catalytic residue [active] 319224006404 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 319224006405 Rrf2 family protein; Region: rrf2_super; TIGR00738 319224006406 serine O-acetyltransferase; Region: cysE; TIGR01172 319224006407 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 319224006408 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 319224006409 trimer interface [polypeptide binding]; other site 319224006410 active site 319224006411 substrate binding site [chemical binding]; other site 319224006412 CoA binding site [chemical binding]; other site 319224006413 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 319224006414 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 319224006415 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 319224006416 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 319224006417 active site 319224006418 dimerization interface [polypeptide binding]; other site 319224006419 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 319224006420 FtsX-like permease family; Region: FtsX; pfam02687 319224006421 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 319224006422 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319224006423 Walker A/P-loop; other site 319224006424 ATP binding site [chemical binding]; other site 319224006425 Q-loop/lid; other site 319224006426 ABC transporter signature motif; other site 319224006427 Walker B; other site 319224006428 D-loop; other site 319224006429 H-loop/switch region; other site 319224006430 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 319224006431 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319224006432 transcription-repair coupling factor; Provisional; Region: PRK10689 319224006433 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 319224006434 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 319224006435 ATP binding site [chemical binding]; other site 319224006436 putative Mg++ binding site [ion binding]; other site 319224006437 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 319224006438 nucleotide binding region [chemical binding]; other site 319224006439 ATP-binding site [chemical binding]; other site 319224006440 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 319224006441 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 319224006442 acylphosphatase; Provisional; Region: PRK14429 319224006443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224006444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224006445 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 319224006446 active site 319224006447 catalytic residues [active] 319224006448 DNA binding site [nucleotide binding] 319224006449 Int/Topo IB signature motif; other site 319224006450 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 319224006451 Family description; Region: VCBS; pfam13517 319224006452 Family description; Region: VCBS; pfam13517 319224006453 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 319224006454 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 319224006455 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 319224006456 hypothetical protein; Provisional; Region: PRK04940 319224006457 beta-hexosaminidase; Provisional; Region: PRK05337 319224006458 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 319224006459 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 319224006460 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 319224006461 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 319224006462 S-formylglutathione hydrolase; Region: PLN02442 319224006463 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 319224006464 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 319224006465 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 319224006466 substrate binding site [chemical binding]; other site 319224006467 catalytic Zn binding site [ion binding]; other site 319224006468 NAD binding site [chemical binding]; other site 319224006469 structural Zn binding site [ion binding]; other site 319224006470 dimer interface [polypeptide binding]; other site 319224006471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224006472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224006473 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 319224006474 putative effector binding pocket; other site 319224006475 putative dimerization interface [polypeptide binding]; other site 319224006476 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 319224006477 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 319224006478 Protein of unknown function (DUF938); Region: DUF938; pfam06080 319224006479 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 319224006480 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 319224006481 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 319224006482 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 319224006483 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 319224006484 NAD binding site [chemical binding]; other site 319224006485 dimerization interface [polypeptide binding]; other site 319224006486 product binding site; other site 319224006487 substrate binding site [chemical binding]; other site 319224006488 zinc binding site [ion binding]; other site 319224006489 catalytic residues [active] 319224006490 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 319224006491 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 319224006492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224006493 homodimer interface [polypeptide binding]; other site 319224006494 catalytic residue [active] 319224006495 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 319224006496 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 319224006497 active site 319224006498 motif I; other site 319224006499 motif II; other site 319224006500 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 319224006501 putative active site pocket [active] 319224006502 4-fold oligomerization interface [polypeptide binding]; other site 319224006503 metal binding residues [ion binding]; metal-binding site 319224006504 3-fold/trimer interface [polypeptide binding]; other site 319224006505 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 319224006506 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 319224006507 putative active site [active] 319224006508 oxyanion strand; other site 319224006509 catalytic triad [active] 319224006510 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 319224006511 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 319224006512 catalytic residues [active] 319224006513 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 319224006514 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 319224006515 substrate binding site [chemical binding]; other site 319224006516 glutamase interaction surface [polypeptide binding]; other site 319224006517 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 319224006518 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 319224006519 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 319224006520 metal binding site [ion binding]; metal-binding site 319224006521 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 319224006522 aromatic amino acid transport protein; Region: araaP; TIGR00837 319224006523 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 319224006524 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 319224006525 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 319224006526 alpha-galactosidase; Provisional; Region: PRK15076 319224006527 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 319224006528 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 319224006529 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 319224006530 quinone interaction residues [chemical binding]; other site 319224006531 active site 319224006532 catalytic residues [active] 319224006533 FMN binding site [chemical binding]; other site 319224006534 substrate binding site [chemical binding]; other site 319224006535 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 319224006536 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 319224006537 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 319224006538 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 319224006539 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 319224006540 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 319224006541 aminopeptidase N; Provisional; Region: pepN; PRK14015 319224006542 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 319224006543 active site 319224006544 Zn binding site [ion binding]; other site 319224006545 carboxy-terminal protease; Provisional; Region: PRK11186 319224006546 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 319224006547 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 319224006548 protein binding site [polypeptide binding]; other site 319224006549 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319224006550 Catalytic dyad [active] 319224006551 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 319224006552 ProP expression regulator; Provisional; Region: PRK04950 319224006553 ProQ/FINO family; Region: ProQ; smart00945 319224006554 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 319224006555 GAF domain; Region: GAF_2; pfam13185 319224006556 YebG protein; Region: YebG; pfam07130 319224006557 Paraquat-inducible protein A; Region: PqiA; pfam04403 319224006558 Paraquat-inducible protein A; Region: PqiA; pfam04403 319224006559 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 319224006560 mce related protein; Region: MCE; pfam02470 319224006561 mce related protein; Region: MCE; pfam02470 319224006562 mce related protein; Region: MCE; pfam02470 319224006563 mce related protein; Region: MCE; pfam02470 319224006564 mce related protein; Region: MCE; pfam02470 319224006565 mce related protein; Region: MCE; pfam02470 319224006566 mce related protein; Region: MCE; pfam02470 319224006567 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 319224006568 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 319224006569 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 319224006570 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224006571 S-adenosylmethionine binding site [chemical binding]; other site 319224006572 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 319224006573 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 319224006574 active site 319224006575 PilZ domain; Region: PilZ; cl01260 319224006576 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 319224006577 DNA polymerase III subunit delta'; Validated; Region: PRK08485 319224006578 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 319224006579 thymidylate kinase; Validated; Region: tmk; PRK00698 319224006580 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 319224006581 TMP-binding site; other site 319224006582 ATP-binding site [chemical binding]; other site 319224006583 YceG-like family; Region: YceG; pfam02618 319224006584 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 319224006585 dimerization interface [polypeptide binding]; other site 319224006586 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 319224006587 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 319224006588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224006589 catalytic residue [active] 319224006590 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 319224006591 trimer interface [polypeptide binding]; other site 319224006592 active site 319224006593 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 319224006594 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 319224006595 Sugar specificity; other site 319224006596 Pyrimidine base specificity; other site 319224006597 ATP-binding site [chemical binding]; other site 319224006598 antiporter inner membrane protein; Provisional; Region: PRK11670 319224006599 Domain of unknown function DUF59; Region: DUF59; cl00941 319224006600 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 319224006601 Walker A motif; other site 319224006602 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 319224006603 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 319224006604 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 319224006605 active site 319224006606 HIGH motif; other site 319224006607 KMSKS motif; other site 319224006608 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 319224006609 tRNA binding surface [nucleotide binding]; other site 319224006610 anticodon binding site; other site 319224006611 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 319224006612 dimer interface [polypeptide binding]; other site 319224006613 putative tRNA-binding site [nucleotide binding]; other site 319224006614 Predicted permeases [General function prediction only]; Region: COG0679 319224006615 Uncharacterized conserved protein [Function unknown]; Region: COG0327 319224006616 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 319224006617 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 319224006618 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 319224006619 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 319224006620 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 319224006621 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 319224006622 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 319224006623 rRNA binding site [nucleotide binding]; other site 319224006624 predicted 30S ribosome binding site; other site 319224006625 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 319224006626 Clp amino terminal domain; Region: Clp_N; pfam02861 319224006627 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 319224006628 Walker A motif; other site 319224006629 ATP binding site [chemical binding]; other site 319224006630 Walker B motif; other site 319224006631 arginine finger; other site 319224006632 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 319224006633 Walker A motif; other site 319224006634 ATP binding site [chemical binding]; other site 319224006635 Walker B motif; other site 319224006636 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 319224006637 Uncharacterized conserved protein [Function unknown]; Region: COG2127 319224006638 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 319224006639 DNA-binding site [nucleotide binding]; DNA binding site 319224006640 RNA-binding motif; other site 319224006641 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 319224006642 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 319224006643 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 319224006644 pseudouridine synthase; Region: TIGR00093 319224006645 probable active site [active] 319224006646 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 319224006647 nudix motif; other site 319224006648 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 319224006649 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 319224006650 putative lysogenization regulator; Reviewed; Region: PRK00218 319224006651 adenylosuccinate lyase; Provisional; Region: PRK09285 319224006652 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 319224006653 tetramer interface [polypeptide binding]; other site 319224006654 active site 319224006655 Cupin superfamily protein; Region: Cupin_4; pfam08007 319224006656 Cupin-like domain; Region: Cupin_8; pfam13621 319224006657 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 319224006658 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 319224006659 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 319224006660 NAD binding site [chemical binding]; other site 319224006661 Phe binding site; other site 319224006662 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 319224006663 MarR family; Region: MarR; pfam01047 319224006664 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 319224006665 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319224006666 FAD binding domain; Region: FAD_binding_4; pfam01565 319224006667 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 319224006668 phosphoenolpyruvate synthase; Validated; Region: PRK06464 319224006669 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 319224006670 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 319224006671 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 319224006672 PEP synthetase regulatory protein; Provisional; Region: PRK05339 319224006673 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 319224006674 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319224006675 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 319224006676 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 319224006677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224006678 active site 319224006679 phosphorylation site [posttranslational modification] 319224006680 intermolecular recognition site; other site 319224006681 dimerization interface [polypeptide binding]; other site 319224006682 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 319224006683 DNA binding residues [nucleotide binding] 319224006684 dimerization interface [polypeptide binding]; other site 319224006685 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 319224006686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224006687 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 319224006688 substrate binding site [chemical binding]; other site 319224006689 dimerization interface [polypeptide binding]; other site 319224006690 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 319224006691 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 319224006692 active site 319224006693 interdomain interaction site; other site 319224006694 putative metal-binding site [ion binding]; other site 319224006695 nucleotide binding site [chemical binding]; other site 319224006696 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 319224006697 domain I; other site 319224006698 DNA binding groove [nucleotide binding] 319224006699 phosphate binding site [ion binding]; other site 319224006700 domain II; other site 319224006701 domain III; other site 319224006702 nucleotide binding site [chemical binding]; other site 319224006703 catalytic site [active] 319224006704 domain IV; other site 319224006705 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319224006706 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319224006707 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 319224006708 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 319224006709 succinylarginine dihydrolase; Provisional; Region: PRK13281 319224006710 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 319224006711 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 319224006712 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 319224006713 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 319224006714 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 319224006715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224006716 active site 319224006717 phosphorylation site [posttranslational modification] 319224006718 intermolecular recognition site; other site 319224006719 dimerization interface [polypeptide binding]; other site 319224006720 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 319224006721 DNA binding site [nucleotide binding] 319224006722 sensor protein PhoQ; Provisional; Region: PRK10815 319224006723 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224006724 ATP binding site [chemical binding]; other site 319224006725 Mg2+ binding site [ion binding]; other site 319224006726 G-X-G motif; other site 319224006727 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 319224006728 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 319224006729 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 319224006730 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224006731 Zn2+ binding site [ion binding]; other site 319224006732 Mg2+ binding site [ion binding]; other site 319224006733 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 319224006734 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 319224006735 Cl binding site [ion binding]; other site 319224006736 oligomer interface [polypeptide binding]; other site 319224006737 AAA domain; Region: AAA_33; pfam13671 319224006738 NAD-dependent deacetylase; Provisional; Region: PRK00481 319224006739 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 319224006740 NAD+ binding site [chemical binding]; other site 319224006741 substrate binding site [chemical binding]; other site 319224006742 Zn binding site [ion binding]; other site 319224006743 ferric uptake regulator; Provisional; Region: fur; PRK09462 319224006744 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 319224006745 metal binding site 2 [ion binding]; metal-binding site 319224006746 putative DNA binding helix; other site 319224006747 metal binding site 1 [ion binding]; metal-binding site 319224006748 dimer interface [polypeptide binding]; other site 319224006749 structural Zn2+ binding site [ion binding]; other site 319224006750 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224006751 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 319224006752 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 319224006753 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319224006754 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 319224006755 CoA binding domain; Region: CoA_binding; pfam02629 319224006756 CoA-ligase; Region: Ligase_CoA; pfam00549 319224006757 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 319224006758 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 319224006759 CoA-ligase; Region: Ligase_CoA; pfam00549 319224006760 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 319224006761 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 319224006762 E3 interaction surface; other site 319224006763 lipoyl attachment site [posttranslational modification]; other site 319224006764 e3 binding domain; Region: E3_binding; pfam02817 319224006765 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 319224006766 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 319224006767 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 319224006768 TPP-binding site [chemical binding]; other site 319224006769 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 319224006770 PYR/PP interface [polypeptide binding]; other site 319224006771 dimer interface [polypeptide binding]; other site 319224006772 TPP binding site [chemical binding]; other site 319224006773 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 319224006774 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 319224006775 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 319224006776 L-aspartate oxidase; Provisional; Region: PRK06175 319224006777 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319224006778 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 319224006779 SdhC subunit interface [polypeptide binding]; other site 319224006780 proximal heme binding site [chemical binding]; other site 319224006781 cardiolipin binding site; other site 319224006782 Iron-sulfur protein interface; other site 319224006783 proximal quinone binding site [chemical binding]; other site 319224006784 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 319224006785 Iron-sulfur protein interface; other site 319224006786 proximal quinone binding site [chemical binding]; other site 319224006787 SdhD (CybS) interface [polypeptide binding]; other site 319224006788 proximal heme binding site [chemical binding]; other site 319224006789 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 319224006790 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 319224006791 dimer interface [polypeptide binding]; other site 319224006792 active site 319224006793 citrylCoA binding site [chemical binding]; other site 319224006794 NADH binding [chemical binding]; other site 319224006795 cationic pore residues; other site 319224006796 oxalacetate/citrate binding site [chemical binding]; other site 319224006797 coenzyme A binding site [chemical binding]; other site 319224006798 catalytic triad [active] 319224006799 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224006800 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 319224006801 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224006802 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 319224006803 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224006804 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 319224006805 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319224006806 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 319224006807 Ion transport protein; Region: Ion_trans; pfam00520 319224006808 Ion channel; Region: Ion_trans_2; pfam07885 319224006809 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 319224006810 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 319224006811 putative metal binding site [ion binding]; other site 319224006812 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 319224006813 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224006814 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 319224006815 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 319224006816 Nucleoid-associated protein [General function prediction only]; Region: COG3081 319224006817 nucleoid-associated protein NdpA; Validated; Region: PRK00378 319224006818 hypothetical protein; Provisional; Region: PRK13689 319224006819 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 319224006820 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 319224006821 Sulfatase; Region: Sulfatase; cl17466 319224006822 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 319224006823 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 319224006824 active site 319224006825 FMN binding site [chemical binding]; other site 319224006826 substrate binding site [chemical binding]; other site 319224006827 homotetramer interface [polypeptide binding]; other site 319224006828 catalytic residue [active] 319224006829 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224006830 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224006831 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 319224006832 dimerization interface [polypeptide binding]; other site 319224006833 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 319224006834 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 319224006835 homodimer interface [polypeptide binding]; other site 319224006836 NAD binding pocket [chemical binding]; other site 319224006837 ATP binding pocket [chemical binding]; other site 319224006838 Mg binding site [ion binding]; other site 319224006839 active-site loop [active] 319224006840 inosine/guanosine kinase; Provisional; Region: PRK15074 319224006841 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319224006842 substrate binding site [chemical binding]; other site 319224006843 ATP binding site [chemical binding]; other site 319224006844 ferrochelatase; Reviewed; Region: hemH; PRK00035 319224006845 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 319224006846 C-terminal domain interface [polypeptide binding]; other site 319224006847 active site 319224006848 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 319224006849 active site 319224006850 N-terminal domain interface [polypeptide binding]; other site 319224006851 adenylate kinase; Reviewed; Region: adk; PRK00279 319224006852 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 319224006853 AMP-binding site [chemical binding]; other site 319224006854 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 319224006855 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 319224006856 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 319224006857 heat shock protein 90; Provisional; Region: PRK05218 319224006858 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224006859 ATP binding site [chemical binding]; other site 319224006860 Mg2+ binding site [ion binding]; other site 319224006861 G-X-G motif; other site 319224006862 recombination protein RecR; Reviewed; Region: recR; PRK00076 319224006863 RecR protein; Region: RecR; pfam02132 319224006864 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 319224006865 putative active site [active] 319224006866 putative metal-binding site [ion binding]; other site 319224006867 tetramer interface [polypeptide binding]; other site 319224006868 hypothetical protein; Validated; Region: PRK00153 319224006869 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 319224006870 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 319224006871 Walker A motif; other site 319224006872 ATP binding site [chemical binding]; other site 319224006873 Walker B motif; other site 319224006874 DNA polymerase III subunit delta'; Validated; Region: PRK08485 319224006875 arginine finger; other site 319224006876 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 319224006877 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 319224006878 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224006879 active site 319224006880 hypothetical protein; Provisional; Region: PRK10527 319224006881 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 319224006882 hypothetical protein; Provisional; Region: PRK05409 319224006883 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 319224006884 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 319224006885 FMN binding site [chemical binding]; other site 319224006886 active site 319224006887 catalytic residues [active] 319224006888 substrate binding site [chemical binding]; other site 319224006889 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 319224006890 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 319224006891 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 319224006892 active site 319224006893 metal binding site [ion binding]; metal-binding site 319224006894 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 319224006895 putative hydrolase; Provisional; Region: PRK11460 319224006896 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 319224006897 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 319224006898 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 319224006899 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 319224006900 active site 319224006901 Zn binding site [ion binding]; other site 319224006902 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 319224006903 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 319224006904 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224006905 Transglycosylase SLT domain; Region: SLT_2; pfam13406 319224006906 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 319224006907 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224006908 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 319224006909 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 319224006910 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 319224006911 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224006912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224006913 active site 319224006914 phosphorylation site [posttranslational modification] 319224006915 intermolecular recognition site; other site 319224006916 dimerization interface [polypeptide binding]; other site 319224006917 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224006918 S-adenosylmethionine binding site [chemical binding]; other site 319224006919 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 319224006920 RNA polymerase sigma factor; Provisional; Region: PRK11924 319224006921 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224006922 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 319224006923 DNA binding residues [nucleotide binding] 319224006924 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 319224006925 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 319224006926 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 319224006927 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 319224006928 active site 319224006929 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 319224006930 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 319224006931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224006932 active site 319224006933 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 319224006934 nudix motif; other site 319224006935 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 319224006936 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 319224006937 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 319224006938 hypothetical protein; Provisional; Region: PRK11770 319224006939 Domain of unknown function (DUF307); Region: DUF307; pfam03733 319224006940 Domain of unknown function (DUF307); Region: DUF307; pfam03733 319224006941 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 319224006942 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 319224006943 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 319224006944 DNA binding residues [nucleotide binding] 319224006945 dimerization interface [polypeptide binding]; other site 319224006946 heat shock protein HtpX; Provisional; Region: PRK05457 319224006947 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 319224006948 active site pocket [active] 319224006949 oxyanion hole [active] 319224006950 catalytic triad [active] 319224006951 active site nucleophile [active] 319224006952 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 319224006953 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 319224006954 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 319224006955 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 319224006956 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 319224006957 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319224006958 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 319224006959 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224006960 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 319224006961 N-terminal plug; other site 319224006962 ligand-binding site [chemical binding]; other site 319224006963 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 319224006964 AAA domain; Region: AAA_26; pfam13500 319224006965 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 319224006966 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224006967 S-adenosylmethionine binding site [chemical binding]; other site 319224006968 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 319224006969 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 319224006970 substrate-cofactor binding pocket; other site 319224006971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224006972 catalytic residue [active] 319224006973 biotin synthase; Provisional; Region: PRK15108 319224006974 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 319224006975 FeS/SAM binding site; other site 319224006976 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 319224006977 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 319224006978 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 319224006979 inhibitor-cofactor binding pocket; inhibition site 319224006980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224006981 catalytic residue [active] 319224006982 Cache domain; Region: Cache_2; cl07034 319224006983 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 319224006984 dimerization interface [polypeptide binding]; other site 319224006985 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224006986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224006987 dimer interface [polypeptide binding]; other site 319224006988 putative CheW interface [polypeptide binding]; other site 319224006989 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 319224006990 Na binding site [ion binding]; other site 319224006991 PAS domain; Region: PAS; smart00091 319224006992 PAS fold; Region: PAS_7; pfam12860 319224006993 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224006994 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 319224006995 dimer interface [polypeptide binding]; other site 319224006996 phosphorylation site [posttranslational modification] 319224006997 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224006998 ATP binding site [chemical binding]; other site 319224006999 Mg2+ binding site [ion binding]; other site 319224007000 G-X-G motif; other site 319224007001 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224007002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007003 active site 319224007004 phosphorylation site [posttranslational modification] 319224007005 intermolecular recognition site; other site 319224007006 dimerization interface [polypeptide binding]; other site 319224007007 acetyl-CoA synthetase; Provisional; Region: PRK00174 319224007008 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 319224007009 active site 319224007010 CoA binding site [chemical binding]; other site 319224007011 acyl-activating enzyme (AAE) consensus motif; other site 319224007012 AMP binding site [chemical binding]; other site 319224007013 acetate binding site [chemical binding]; other site 319224007014 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 319224007015 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 319224007016 ATP binding site [chemical binding]; other site 319224007017 putative Mg++ binding site [ion binding]; other site 319224007018 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 319224007019 nucleotide binding region [chemical binding]; other site 319224007020 ATP-binding site [chemical binding]; other site 319224007021 Double zinc ribbon; Region: DZR; pfam12773 319224007022 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 319224007023 GSH binding site [chemical binding]; other site 319224007024 catalytic residues [active] 319224007025 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 319224007026 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 319224007027 active site 319224007028 motif I; other site 319224007029 motif II; other site 319224007030 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 319224007031 Transcriptional regulators [Transcription]; Region: GntR; COG1802 319224007032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224007033 DNA-binding site [nucleotide binding]; DNA binding site 319224007034 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 319224007035 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 319224007036 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 319224007037 dimer interface [polypeptide binding]; other site 319224007038 active site 319224007039 CoA binding pocket [chemical binding]; other site 319224007040 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 319224007041 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 319224007042 active site 319224007043 catalytic site [active] 319224007044 substrate binding site [chemical binding]; other site 319224007045 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 319224007046 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 319224007047 ligand binding site [chemical binding]; other site 319224007048 flexible hinge region; other site 319224007049 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 319224007050 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 319224007051 metal binding triad; other site 319224007052 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 319224007053 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 319224007054 Na binding site [ion binding]; other site 319224007055 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 319224007056 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 319224007057 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 319224007058 catalytic residues [active] 319224007059 hinge region; other site 319224007060 alpha helical domain; other site 319224007061 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319224007062 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 319224007063 putative NAD(P) binding site [chemical binding]; other site 319224007064 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 319224007065 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224007066 Zn2+ binding site [ion binding]; other site 319224007067 Mg2+ binding site [ion binding]; other site 319224007068 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 319224007069 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 319224007070 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 319224007071 nucleotide binding pocket [chemical binding]; other site 319224007072 K-X-D-G motif; other site 319224007073 catalytic site [active] 319224007074 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 319224007075 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 319224007076 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 319224007077 Dimer interface [polypeptide binding]; other site 319224007078 BRCT sequence motif; other site 319224007079 cell division protein ZipA; Provisional; Region: PRK03427 319224007080 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 319224007081 FtsZ protein binding site [polypeptide binding]; other site 319224007082 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 319224007083 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 319224007084 Walker A/P-loop; other site 319224007085 ATP binding site [chemical binding]; other site 319224007086 Q-loop/lid; other site 319224007087 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 319224007088 ABC transporter signature motif; other site 319224007089 Walker B; other site 319224007090 D-loop; other site 319224007091 H-loop/switch region; other site 319224007092 putative sulfate transport protein CysZ; Validated; Region: PRK04949 319224007093 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 319224007094 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 319224007095 active site 319224007096 RDD family; Region: RDD; pfam06271 319224007097 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 319224007098 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 319224007099 dimer interface [polypeptide binding]; other site 319224007100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224007101 catalytic residue [active] 319224007102 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 319224007103 O-methyltransferase; Region: Methyltransf_2; pfam00891 319224007104 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 319224007105 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 319224007106 gating phenylalanine in ion channel; other site 319224007107 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 319224007108 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 319224007109 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 319224007110 hypothetical protein; Provisional; Region: PRK11588 319224007111 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 319224007112 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 319224007113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224007114 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 319224007115 putative dimerization interface [polypeptide binding]; other site 319224007116 formate transporter FocA; Region: formate_focA; TIGR04060 319224007117 FOG: CBS domain [General function prediction only]; Region: COG0517 319224007118 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 319224007119 CBS domain; Region: CBS; pfam00571 319224007120 FOG: CBS domain [General function prediction only]; Region: COG0517 319224007121 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 319224007122 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 319224007123 Pyruvate formate lyase 1; Region: PFL1; cd01678 319224007124 coenzyme A binding site [chemical binding]; other site 319224007125 active site 319224007126 catalytic residues [active] 319224007127 glycine loop; other site 319224007128 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 319224007129 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 319224007130 FeS/SAM binding site; other site 319224007131 Protein of unknown function, DUF412; Region: DUF412; pfam04217 319224007132 propionate/acetate kinase; Provisional; Region: PRK12379 319224007133 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 319224007134 phosphate acetyltransferase; Reviewed; Region: PRK05632 319224007135 DRTGG domain; Region: DRTGG; pfam07085 319224007136 phosphate acetyltransferase; Region: pta; TIGR00651 319224007137 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 319224007138 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224007139 S-adenosylmethionine binding site [chemical binding]; other site 319224007140 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 319224007141 Domain of unknown function DUF20; Region: UPF0118; pfam01594 319224007142 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 319224007143 active site 319224007144 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 319224007145 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 319224007146 putative NAD(P) binding site [chemical binding]; other site 319224007147 putative active site [active] 319224007148 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 319224007149 FtsX-like permease family; Region: FtsX; pfam02687 319224007150 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 319224007151 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319224007152 Walker A/P-loop; other site 319224007153 ATP binding site [chemical binding]; other site 319224007154 Q-loop/lid; other site 319224007155 ABC transporter signature motif; other site 319224007156 Walker B; other site 319224007157 D-loop; other site 319224007158 H-loop/switch region; other site 319224007159 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 319224007160 active site 319224007161 catalytic triad [active] 319224007162 oxyanion hole [active] 319224007163 switch loop; other site 319224007164 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 319224007165 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 319224007166 putative inner membrane peptidase; Provisional; Region: PRK11778 319224007167 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 319224007168 tandem repeat interface [polypeptide binding]; other site 319224007169 oligomer interface [polypeptide binding]; other site 319224007170 active site residues [active] 319224007171 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 319224007172 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 319224007173 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 319224007174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224007175 NAD(P) binding site [chemical binding]; other site 319224007176 active site 319224007177 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 319224007178 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 319224007179 RNA binding surface [nucleotide binding]; other site 319224007180 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 319224007181 probable active site [active] 319224007182 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 319224007183 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 319224007184 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 319224007185 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 319224007186 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 319224007187 active site 319224007188 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 319224007189 anthranilate synthase component I; Provisional; Region: PRK13564 319224007190 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 319224007191 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 319224007192 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 319224007193 glutamine binding [chemical binding]; other site 319224007194 catalytic triad [active] 319224007195 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 319224007196 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 319224007197 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 319224007198 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 319224007199 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 319224007200 active site 319224007201 ribulose/triose binding site [chemical binding]; other site 319224007202 phosphate binding site [ion binding]; other site 319224007203 substrate (anthranilate) binding pocket [chemical binding]; other site 319224007204 product (indole) binding pocket [chemical binding]; other site 319224007205 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 319224007206 active site 319224007207 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 319224007208 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 319224007209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224007210 catalytic residue [active] 319224007211 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 319224007212 substrate binding site [chemical binding]; other site 319224007213 active site 319224007214 catalytic residues [active] 319224007215 heterodimer interface [polypeptide binding]; other site 319224007216 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 319224007217 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 319224007218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224007219 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 319224007220 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 319224007221 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 319224007222 IucA / IucC family; Region: IucA_IucC; pfam04183 319224007223 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 319224007224 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 319224007225 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 319224007226 N-terminal plug; other site 319224007227 ligand-binding site [chemical binding]; other site 319224007228 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 319224007229 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 319224007230 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 319224007231 intracellular septation protein A; Reviewed; Region: PRK00259 319224007232 YciI-like protein; Reviewed; Region: PRK11370 319224007233 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 319224007234 putative catalytic site [active] 319224007235 putative phosphate binding site [ion binding]; other site 319224007236 active site 319224007237 metal binding site A [ion binding]; metal-binding site 319224007238 DNA binding site [nucleotide binding] 319224007239 putative AP binding site [nucleotide binding]; other site 319224007240 putative metal binding site B [ion binding]; other site 319224007241 SnoaL-like domain; Region: SnoaL_2; pfam12680 319224007242 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224007243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224007244 dimer interface [polypeptide binding]; other site 319224007245 putative CheW interface [polypeptide binding]; other site 319224007246 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 319224007247 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 319224007248 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 319224007249 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 319224007250 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 319224007251 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 319224007252 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 319224007253 catalytic loop [active] 319224007254 iron binding site [ion binding]; other site 319224007255 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 319224007256 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 319224007257 Ligand binding site; other site 319224007258 metal-binding site 319224007259 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 319224007260 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 319224007261 XdhC Rossmann domain; Region: XdhC_C; pfam13478 319224007262 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 319224007263 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 319224007264 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 319224007265 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 319224007266 active sites [active] 319224007267 tetramer interface [polypeptide binding]; other site 319224007268 L-aspartate oxidase; Provisional; Region: PRK06175 319224007269 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 319224007270 GAF domain; Region: GAF_2; pfam13185 319224007271 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 319224007272 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319224007273 Walker A motif; other site 319224007274 ATP binding site [chemical binding]; other site 319224007275 Walker B motif; other site 319224007276 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 319224007277 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 319224007278 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 319224007279 eyelet of channel; other site 319224007280 trimer interface [polypeptide binding]; other site 319224007281 DNA topoisomerase III; Provisional; Region: PRK07726 319224007282 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 319224007283 active site 319224007284 putative interdomain interaction site [polypeptide binding]; other site 319224007285 putative metal-binding site [ion binding]; other site 319224007286 putative nucleotide binding site [chemical binding]; other site 319224007287 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 319224007288 domain I; other site 319224007289 DNA binding groove [nucleotide binding] 319224007290 phosphate binding site [ion binding]; other site 319224007291 domain II; other site 319224007292 domain III; other site 319224007293 nucleotide binding site [chemical binding]; other site 319224007294 catalytic site [active] 319224007295 domain IV; other site 319224007296 amidophosphoribosyltransferase; Provisional; Region: PRK09246 319224007297 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 319224007298 active site 319224007299 tetramer interface [polypeptide binding]; other site 319224007300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224007301 active site 319224007302 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 319224007303 Colicin V production protein; Region: Colicin_V; cl00567 319224007304 cell division protein DedD; Provisional; Region: PRK11633 319224007305 Sporulation related domain; Region: SPOR; pfam05036 319224007306 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 319224007307 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319224007308 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319224007309 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 319224007310 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 319224007311 dimerization interface 3.5A [polypeptide binding]; other site 319224007312 active site 319224007313 FimV N-terminal domain; Region: FimV_core; TIGR03505 319224007314 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 319224007315 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 319224007316 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 319224007317 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 319224007318 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 319224007319 ligand binding site [chemical binding]; other site 319224007320 NAD binding site [chemical binding]; other site 319224007321 catalytic site [active] 319224007322 homodimer interface [polypeptide binding]; other site 319224007323 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 319224007324 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 319224007325 dimer interface [polypeptide binding]; other site 319224007326 active site 319224007327 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 319224007328 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 319224007329 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 319224007330 YfcL protein; Region: YfcL; pfam08891 319224007331 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 319224007332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224007333 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 319224007334 putative substrate translocation pore; other site 319224007335 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 319224007336 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 319224007337 Tetramer interface [polypeptide binding]; other site 319224007338 active site 319224007339 FMN-binding site [chemical binding]; other site 319224007340 HemK family putative methylases; Region: hemK_fam; TIGR00536 319224007341 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224007342 S-adenosylmethionine binding site [chemical binding]; other site 319224007343 hypothetical protein; Provisional; Region: PRK04946 319224007344 Smr domain; Region: Smr; pfam01713 319224007345 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 319224007346 catalytic core [active] 319224007347 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 319224007348 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319224007349 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224007350 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224007351 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 319224007352 Two component regulator propeller; Region: Reg_prop; pfam07494 319224007353 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 319224007354 PAS fold; Region: PAS_3; pfam08447 319224007355 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 319224007356 PAS domain; Region: PAS_9; pfam13426 319224007357 putative active site [active] 319224007358 heme pocket [chemical binding]; other site 319224007359 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224007360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224007361 metal binding site [ion binding]; metal-binding site 319224007362 active site 319224007363 I-site; other site 319224007364 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 319224007365 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 319224007366 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 319224007367 substrate binding site [chemical binding]; other site 319224007368 oxyanion hole (OAH) forming residues; other site 319224007369 trimer interface [polypeptide binding]; other site 319224007370 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 319224007371 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 319224007372 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 319224007373 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 319224007374 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 319224007375 dimer interface [polypeptide binding]; other site 319224007376 active site 319224007377 MoxR-like ATPases [General function prediction only]; Region: COG0714 319224007378 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 319224007379 Walker A motif; other site 319224007380 ATP binding site [chemical binding]; other site 319224007381 Walker B motif; other site 319224007382 arginine finger; other site 319224007383 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 319224007384 Protein of unknown function DUF58; Region: DUF58; pfam01882 319224007385 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 319224007386 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 319224007387 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 319224007388 metal ion-dependent adhesion site (MIDAS); other site 319224007389 von Willebrand factor type A domain; Region: VWA_2; pfam13519 319224007390 metal ion-dependent adhesion site (MIDAS); other site 319224007391 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 319224007392 binding surface 319224007393 TPR motif; other site 319224007394 Tetratricopeptide repeat; Region: TPR_16; pfam13432 319224007395 Oxygen tolerance; Region: BatD; pfam13584 319224007396 RNA polymerase sigma factor; Provisional; Region: PRK12517 319224007397 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224007398 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 319224007399 DNA binding residues [nucleotide binding] 319224007400 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 319224007401 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 319224007402 Na binding site [ion binding]; other site 319224007403 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 319224007404 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 319224007405 active site 319224007406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 319224007407 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224007408 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224007409 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224007410 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224007411 Protein export membrane protein; Region: SecD_SecF; cl14618 319224007412 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 319224007413 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 319224007414 active site residue [active] 319224007415 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 319224007416 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 319224007417 active site 319224007418 catalytic residues [active] 319224007419 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 319224007420 PA/subtilisin-like domain interface [polypeptide binding]; other site 319224007421 Subtilase family; Region: Peptidase_S8; pfam00082 319224007422 catalytic residues [active] 319224007423 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 319224007424 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 319224007425 YaeQ protein; Region: YaeQ; pfam07152 319224007426 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 319224007427 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 319224007428 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 319224007429 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 319224007430 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 319224007431 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 319224007432 Protein export membrane protein; Region: SecD_SecF; pfam02355 319224007433 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 319224007434 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 319224007435 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 319224007436 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 319224007437 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 319224007438 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 319224007439 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 319224007440 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 319224007441 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 319224007442 Protein of unknown function, DUF479; Region: DUF479; pfam04336 319224007443 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224007444 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224007445 active site 319224007446 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 319224007447 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 319224007448 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 319224007449 serine/threonine transporter SstT; Provisional; Region: PRK13628 319224007450 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 319224007451 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 319224007452 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224007453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007454 active site 319224007455 phosphorylation site [posttranslational modification] 319224007456 intermolecular recognition site; other site 319224007457 dimerization interface [polypeptide binding]; other site 319224007458 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 319224007459 active site 319224007460 catalytic residues [active] 319224007461 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 319224007462 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 319224007463 ATP binding site [chemical binding]; other site 319224007464 Mg++ binding site [ion binding]; other site 319224007465 motif III; other site 319224007466 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 319224007467 nucleotide binding region [chemical binding]; other site 319224007468 ATP-binding site [chemical binding]; other site 319224007469 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 319224007470 DNA binding site [nucleotide binding] 319224007471 active site 319224007472 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 319224007473 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 319224007474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224007475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224007476 AlkA N-terminal domain; Region: AlkA_N; pfam06029 319224007477 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 319224007478 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319224007479 minor groove reading motif; other site 319224007480 helix-hairpin-helix signature motif; other site 319224007481 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319224007482 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224007483 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 319224007484 Walker A/P-loop; other site 319224007485 ATP binding site [chemical binding]; other site 319224007486 Q-loop/lid; other site 319224007487 ABC transporter signature motif; other site 319224007488 Walker B; other site 319224007489 D-loop; other site 319224007490 H-loop/switch region; other site 319224007491 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 319224007492 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 319224007493 active site 319224007494 HIGH motif; other site 319224007495 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 319224007496 active site 319224007497 KMSKS motif; other site 319224007498 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 319224007499 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 319224007500 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 319224007501 DctM-like transporters; Region: DctM; pfam06808 319224007502 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 319224007503 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 319224007504 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 319224007505 dimer interface [polypeptide binding]; other site 319224007506 phosphorylation site [posttranslational modification] 319224007507 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224007508 ATP binding site [chemical binding]; other site 319224007509 Mg2+ binding site [ion binding]; other site 319224007510 G-X-G motif; other site 319224007511 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319224007512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007513 active site 319224007514 phosphorylation site [posttranslational modification] 319224007515 intermolecular recognition site; other site 319224007516 dimerization interface [polypeptide binding]; other site 319224007517 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 319224007518 Walker A motif; other site 319224007519 ATP binding site [chemical binding]; other site 319224007520 Walker B motif; other site 319224007521 arginine finger; other site 319224007522 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224007523 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 319224007524 Transglycosylase; Region: Transgly; cl17702 319224007525 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 319224007526 thymidine kinase; Provisional; Region: PRK04296 319224007527 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 319224007528 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 319224007529 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 319224007530 active site 319224007531 Zn binding site [ion binding]; other site 319224007532 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 319224007533 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 319224007534 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 319224007535 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 319224007536 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 319224007537 Ligand binding site [chemical binding]; other site 319224007538 Electron transfer flavoprotein domain; Region: ETF; pfam01012 319224007539 Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA; Region: Topoisomer_IB_N; cl02774 319224007540 H-NS histone family; Region: Histone_HNS; pfam00816 319224007541 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 319224007542 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 319224007543 active site 319224007544 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 319224007545 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 319224007546 active site 319224007547 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 319224007548 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 319224007549 active site 319224007550 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 319224007551 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 319224007552 homodimer interaction site [polypeptide binding]; other site 319224007553 cofactor binding site; other site 319224007554 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 319224007555 putative CoA binding site [chemical binding]; other site 319224007556 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 319224007557 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 319224007558 trimer interface [polypeptide binding]; other site 319224007559 active site 319224007560 substrate binding site [chemical binding]; other site 319224007561 CoA binding site [chemical binding]; other site 319224007562 prolyl-tRNA synthetase; Provisional; Region: PRK09194 319224007563 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 319224007564 dimer interface [polypeptide binding]; other site 319224007565 motif 1; other site 319224007566 active site 319224007567 motif 2; other site 319224007568 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 319224007569 putative deacylase active site [active] 319224007570 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 319224007571 active site 319224007572 motif 3; other site 319224007573 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 319224007574 anticodon binding site; other site 319224007575 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 319224007576 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 319224007577 nucleophile elbow; other site 319224007578 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 319224007579 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 319224007580 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 319224007581 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 319224007582 GIY-YIG motif/motif A; other site 319224007583 putative active site [active] 319224007584 putative metal binding site [ion binding]; other site 319224007585 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224007586 GAF domain; Region: GAF; pfam01590 319224007587 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224007588 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224007589 ATP binding site [chemical binding]; other site 319224007590 Mg2+ binding site [ion binding]; other site 319224007591 G-X-G motif; other site 319224007592 NlpE N-terminal domain; Region: NlpE; pfam04170 319224007593 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 319224007594 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 319224007595 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 319224007596 NAD(P) binding site [chemical binding]; other site 319224007597 homodimer interface [polypeptide binding]; other site 319224007598 substrate binding site [chemical binding]; other site 319224007599 active site 319224007600 Bacterial sugar transferase; Region: Bac_transf; pfam02397 319224007601 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319224007602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224007603 NAD(P) binding site [chemical binding]; other site 319224007604 active site 319224007605 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 319224007606 active site 319224007607 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319224007608 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 319224007609 Probable Catalytic site; other site 319224007610 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319224007611 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 319224007612 active site 319224007613 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 319224007614 active site 319224007615 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319224007616 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319224007617 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 319224007618 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 319224007619 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 319224007620 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 319224007621 NADP binding site [chemical binding]; other site 319224007622 active site 319224007623 putative substrate binding site [chemical binding]; other site 319224007624 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 319224007625 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 319224007626 substrate binding site; other site 319224007627 tetramer interface; other site 319224007628 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 319224007629 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 319224007630 NAD binding site [chemical binding]; other site 319224007631 substrate binding site [chemical binding]; other site 319224007632 homodimer interface [polypeptide binding]; other site 319224007633 active site 319224007634 Chain length determinant protein; Region: Wzz; pfam02706 319224007635 hypothetical protein; Reviewed; Region: PRK12275 319224007636 four helix bundle protein; Region: TIGR02436 319224007637 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 319224007638 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 319224007639 SLBB domain; Region: SLBB; pfam10531 319224007640 SLBB domain; Region: SLBB; pfam10531 319224007641 SLBB domain; Region: SLBB; pfam10531 319224007642 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 319224007643 SLBB domain; Region: SLBB; pfam10531 319224007644 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 319224007645 transcriptional activator RfaH; Region: RfaH; TIGR01955 319224007646 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 319224007647 heterodimer interface [polypeptide binding]; other site 319224007648 homodimer interface [polypeptide binding]; other site 319224007649 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 319224007650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224007651 putative substrate translocation pore; other site 319224007652 Response regulator receiver domain; Region: Response_reg; pfam00072 319224007653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007654 active site 319224007655 phosphorylation site [posttranslational modification] 319224007656 intermolecular recognition site; other site 319224007657 dimerization interface [polypeptide binding]; other site 319224007658 VacJ like lipoprotein; Region: VacJ; cl01073 319224007659 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 319224007660 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 319224007661 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 319224007662 putative CheA interaction surface; other site 319224007663 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 319224007664 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 319224007665 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 319224007666 P-loop; other site 319224007667 Magnesium ion binding site [ion binding]; other site 319224007668 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 319224007669 Magnesium ion binding site [ion binding]; other site 319224007670 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 319224007671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007672 active site 319224007673 phosphorylation site [posttranslational modification] 319224007674 intermolecular recognition site; other site 319224007675 CheB methylesterase; Region: CheB_methylest; pfam01339 319224007676 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 319224007677 putative binding surface; other site 319224007678 active site 319224007679 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 319224007680 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 319224007681 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224007682 ATP binding site [chemical binding]; other site 319224007683 Mg2+ binding site [ion binding]; other site 319224007684 G-X-G motif; other site 319224007685 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 319224007686 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 319224007687 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 319224007688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007689 active site 319224007690 phosphorylation site [posttranslational modification] 319224007691 intermolecular recognition site; other site 319224007692 dimerization interface [polypeptide binding]; other site 319224007693 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 319224007694 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224007695 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 319224007696 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 319224007697 DNA binding residues [nucleotide binding] 319224007698 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 319224007699 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 319224007700 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 319224007701 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 319224007702 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 319224007703 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 319224007704 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 319224007705 FHIPEP family; Region: FHIPEP; pfam00771 319224007706 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 319224007707 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 319224007708 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 319224007709 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 319224007710 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 319224007711 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 319224007712 flagellar motor switch protein; Validated; Region: fliN; PRK08983 319224007713 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 319224007714 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 319224007715 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 319224007716 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 319224007717 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 319224007718 Flagellar FliJ protein; Region: FliJ; pfam02050 319224007719 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 319224007720 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 319224007721 Walker A motif/ATP binding site; other site 319224007722 Walker B motif; other site 319224007723 flagellar assembly protein H; Validated; Region: fliH; PRK05687 319224007724 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 319224007725 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 319224007726 Flagellar assembly protein FliH; Region: FliH; pfam02108 319224007727 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 319224007728 MgtE intracellular N domain; Region: MgtE_N; smart00924 319224007729 FliG C-terminal domain; Region: FliG_C; pfam01706 319224007730 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 319224007731 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 319224007732 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 319224007733 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 319224007734 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319224007735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007736 active site 319224007737 phosphorylation site [posttranslational modification] 319224007738 intermolecular recognition site; other site 319224007739 dimerization interface [polypeptide binding]; other site 319224007740 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 319224007741 Walker A motif; other site 319224007742 ATP binding site [chemical binding]; other site 319224007743 Walker B motif; other site 319224007744 arginine finger; other site 319224007745 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224007746 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 319224007747 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 319224007748 putative active site [active] 319224007749 heme pocket [chemical binding]; other site 319224007750 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 319224007751 dimer interface [polypeptide binding]; other site 319224007752 phosphorylation site [posttranslational modification] 319224007753 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224007754 ATP binding site [chemical binding]; other site 319224007755 Mg2+ binding site [ion binding]; other site 319224007756 G-X-G motif; other site 319224007757 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 319224007758 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319224007759 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 319224007760 Walker A motif; other site 319224007761 ATP binding site [chemical binding]; other site 319224007762 Walker B motif; other site 319224007763 arginine finger; other site 319224007764 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224007765 flagellar protein FliS; Validated; Region: fliS; PRK05685 319224007766 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 319224007767 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 319224007768 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 319224007769 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 319224007770 FlaG protein; Region: FlaG; pfam03646 319224007771 flagellin; Provisional; Region: PRK12802 319224007772 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 319224007773 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 319224007774 flagellin; Provisional; Region: PRK12802 319224007775 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 319224007776 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 319224007777 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 319224007778 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 319224007779 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 319224007780 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 319224007781 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224007782 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 319224007783 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 319224007784 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 319224007785 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 319224007786 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 319224007787 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 319224007788 Flagellar L-ring protein; Region: FlgH; pfam02107 319224007789 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 319224007790 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 319224007791 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224007792 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 319224007793 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 319224007794 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 319224007795 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 319224007796 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224007797 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 319224007798 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 319224007799 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 319224007800 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 319224007801 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 319224007802 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224007803 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 319224007804 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 319224007805 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 319224007806 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 319224007807 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224007808 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 319224007809 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224007810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224007811 active site 319224007812 phosphorylation site [posttranslational modification] 319224007813 intermolecular recognition site; other site 319224007814 dimerization interface [polypeptide binding]; other site 319224007815 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 319224007816 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 319224007817 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 319224007818 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 319224007819 FlgN protein; Region: FlgN; pfam05130 319224007820 LPP20 lipoprotein; Region: LPP20; pfam02169 319224007821 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 319224007822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224007823 AAA domain; Region: AAA_21; pfam13304 319224007824 Walker A/P-loop; other site 319224007825 ATP binding site [chemical binding]; other site 319224007826 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 319224007827 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319224007828 putative active site [active] 319224007829 putative NTP binding site [chemical binding]; other site 319224007830 putative nucleic acid binding site [nucleotide binding]; other site 319224007831 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 319224007832 integrase; Provisional; Region: int; PHA02601 319224007833 active site 319224007834 DNA binding site [nucleotide binding] 319224007835 Int/Topo IB signature motif; other site 319224007836 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 319224007837 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 319224007838 active site 319224007839 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 319224007840 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 319224007841 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 319224007842 Methyltransferase domain; Region: Methyltransf_12; pfam08242 319224007843 S-adenosylmethionine binding site [chemical binding]; other site 319224007844 LicD family; Region: LicD; pfam04991 319224007845 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 319224007846 NAD(P) binding site [chemical binding]; other site 319224007847 catalytic residues [active] 319224007848 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 319224007849 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 319224007850 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319224007851 acyl-activating enzyme (AAE) consensus motif; other site 319224007852 AMP binding site [chemical binding]; other site 319224007853 active site 319224007854 CoA binding site [chemical binding]; other site 319224007855 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 319224007856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224007857 NAD(P) binding site [chemical binding]; other site 319224007858 active site 319224007859 Phosphopantetheine attachment site; Region: PP-binding; cl09936 319224007860 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224007861 pseudaminic acid synthase; Region: PseI; TIGR03586 319224007862 NeuB family; Region: NeuB; pfam03102 319224007863 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 319224007864 NeuB binding interface [polypeptide binding]; other site 319224007865 putative substrate binding site [chemical binding]; other site 319224007866 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 319224007867 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 319224007868 ligand binding site; other site 319224007869 tetramer interface; other site 319224007870 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 319224007871 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 319224007872 inhibitor-cofactor binding pocket; inhibition site 319224007873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224007874 catalytic residue [active] 319224007875 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 319224007876 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 319224007877 NAD(P) binding site [chemical binding]; other site 319224007878 homodimer interface [polypeptide binding]; other site 319224007879 substrate binding site [chemical binding]; other site 319224007880 active site 319224007881 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 319224007882 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 319224007883 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 319224007884 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 319224007885 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224007886 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224007887 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224007888 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224007889 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224007890 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224007891 HAMP domain; Region: HAMP; pfam00672 319224007892 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224007893 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224007894 dimer interface [polypeptide binding]; other site 319224007895 putative CheW interface [polypeptide binding]; other site 319224007896 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 319224007897 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 319224007898 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 319224007899 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 319224007900 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 319224007901 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 319224007902 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 319224007903 dimerization interface [polypeptide binding]; other site 319224007904 ATP binding site [chemical binding]; other site 319224007905 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 319224007906 dimerization interface [polypeptide binding]; other site 319224007907 ATP binding site [chemical binding]; other site 319224007908 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 319224007909 putative active site [active] 319224007910 catalytic triad [active] 319224007911 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 319224007912 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 319224007913 substrate binding pocket [chemical binding]; other site 319224007914 membrane-bound complex binding site; other site 319224007915 hinge residues; other site 319224007916 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 319224007917 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224007918 catalytic residue [active] 319224007919 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 319224007920 nucleoside/Zn binding site; other site 319224007921 dimer interface [polypeptide binding]; other site 319224007922 catalytic motif [active] 319224007923 GMP synthase; Reviewed; Region: guaA; PRK00074 319224007924 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 319224007925 AMP/PPi binding site [chemical binding]; other site 319224007926 candidate oxyanion hole; other site 319224007927 catalytic triad [active] 319224007928 potential glutamine specificity residues [chemical binding]; other site 319224007929 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 319224007930 ATP Binding subdomain [chemical binding]; other site 319224007931 Ligand Binding sites [chemical binding]; other site 319224007932 Dimerization subdomain; other site 319224007933 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 319224007934 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 319224007935 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 319224007936 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 319224007937 active site 319224007938 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 319224007939 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 319224007940 generic binding surface II; other site 319224007941 generic binding surface I; other site 319224007942 GTP-binding protein Der; Reviewed; Region: PRK00093 319224007943 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 319224007944 G1 box; other site 319224007945 GTP/Mg2+ binding site [chemical binding]; other site 319224007946 Switch I region; other site 319224007947 G2 box; other site 319224007948 Switch II region; other site 319224007949 G3 box; other site 319224007950 G4 box; other site 319224007951 G5 box; other site 319224007952 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 319224007953 G1 box; other site 319224007954 GTP/Mg2+ binding site [chemical binding]; other site 319224007955 Switch I region; other site 319224007956 G2 box; other site 319224007957 G3 box; other site 319224007958 Switch II region; other site 319224007959 G4 box; other site 319224007960 G5 box; other site 319224007961 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 319224007962 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 319224007963 active site 319224007964 Trp docking motif [polypeptide binding]; other site 319224007965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 319224007966 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 319224007967 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 319224007968 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 319224007969 dimer interface [polypeptide binding]; other site 319224007970 motif 1; other site 319224007971 active site 319224007972 motif 2; other site 319224007973 motif 3; other site 319224007974 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 319224007975 anticodon binding site; other site 319224007976 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 319224007977 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 319224007978 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 319224007979 cytoskeletal protein RodZ; Provisional; Region: PRK10856 319224007980 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 319224007981 non-specific DNA binding site [nucleotide binding]; other site 319224007982 salt bridge; other site 319224007983 sequence-specific DNA binding site [nucleotide binding]; other site 319224007984 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 319224007985 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 319224007986 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 319224007987 binding surface 319224007988 TPR motif; other site 319224007989 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 319224007990 TPR motif; other site 319224007991 binding surface 319224007992 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 319224007993 binding surface 319224007994 TPR motif; other site 319224007995 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 319224007996 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 319224007997 FeS/SAM binding site; other site 319224007998 Domain of unknown function DUF21; Region: DUF21; pfam01595 319224007999 FOG: CBS domain [General function prediction only]; Region: COG0517 319224008000 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 319224008001 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 319224008002 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319224008003 active site 319224008004 metal binding site [ion binding]; metal-binding site 319224008005 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 319224008006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224008007 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 319224008008 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 319224008009 putative dimerization interface [polypeptide binding]; other site 319224008010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 319224008011 Transposase; Region: DEDD_Tnp_IS110; pfam01548 319224008012 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 319224008013 PEGA domain; Region: PEGA; pfam08308 319224008014 Predicted membrane protein [Function unknown]; Region: COG2259 319224008015 Pirin-related protein [General function prediction only]; Region: COG1741 319224008016 Pirin; Region: Pirin; pfam02678 319224008017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224008018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224008019 Coenzyme A binding pocket [chemical binding]; other site 319224008020 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224008021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224008022 Coenzyme A binding pocket [chemical binding]; other site 319224008023 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 319224008024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 319224008025 Coenzyme A binding pocket [chemical binding]; other site 319224008026 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 319224008027 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 319224008028 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224008029 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224008030 metal binding site [ion binding]; metal-binding site 319224008031 active site 319224008032 I-site; other site 319224008033 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 319224008034 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 319224008035 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 319224008036 tetramer interface [polypeptide binding]; other site 319224008037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224008038 catalytic residue [active] 319224008039 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319224008040 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224008041 ligand binding site [chemical binding]; other site 319224008042 mechanosensitive channel MscS; Provisional; Region: PRK10334 319224008043 Conserved TM helix; Region: TM_helix; pfam05552 319224008044 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319224008045 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 319224008046 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 319224008047 dimer interface [polypeptide binding]; other site 319224008048 catalytic triad [active] 319224008049 peroxidatic and resolving cysteines [active] 319224008050 Predicted membrane protein [Function unknown]; Region: COG2860 319224008051 UPF0126 domain; Region: UPF0126; pfam03458 319224008052 UPF0126 domain; Region: UPF0126; pfam03458 319224008053 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 319224008054 translation initiation factor Sui1; Validated; Region: PRK06824 319224008055 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 319224008056 putative rRNA binding site [nucleotide binding]; other site 319224008057 hypothetical protein; Validated; Region: PRK00228 319224008058 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 319224008059 ferrochelatase; Reviewed; Region: hemH; PRK00035 319224008060 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 319224008061 active site 319224008062 C-terminal domain interface [polypeptide binding]; other site 319224008063 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 319224008064 active site 319224008065 N-terminal domain interface [polypeptide binding]; other site 319224008066 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 319224008067 catalytic residues [active] 319224008068 dimer interface [polypeptide binding]; other site 319224008069 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 319224008070 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 319224008071 Walker A motif; other site 319224008072 ATP binding site [chemical binding]; other site 319224008073 Walker B motif; other site 319224008074 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 319224008075 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 319224008076 Walker A motif; other site 319224008077 ATP binding site [chemical binding]; other site 319224008078 Walker B motif; other site 319224008079 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 319224008080 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319224008081 catalytic residue [active] 319224008082 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 319224008083 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 319224008084 YGGT family; Region: YGGT; pfam02325 319224008085 YGGT family; Region: YGGT; pfam02325 319224008086 hypothetical protein; Validated; Region: PRK05090 319224008087 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 319224008088 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 319224008089 active site 319224008090 dimerization interface [polypeptide binding]; other site 319224008091 HemN family oxidoreductase; Provisional; Region: PRK05660 319224008092 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 319224008093 FeS/SAM binding site; other site 319224008094 HemN C-terminal domain; Region: HemN_C; pfam06969 319224008095 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 319224008096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224008097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224008098 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 319224008099 putative effector binding pocket; other site 319224008100 dimerization interface [polypeptide binding]; other site 319224008101 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 319224008102 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 319224008103 glutaminase; Provisional; Region: PRK00971 319224008104 hypothetical protein; Provisional; Region: PRK11702 319224008105 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008106 S-adenosylmethionine binding site [chemical binding]; other site 319224008107 adenine DNA glycosylase; Provisional; Region: PRK10880 319224008108 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319224008109 minor groove reading motif; other site 319224008110 helix-hairpin-helix signature motif; other site 319224008111 substrate binding pocket [chemical binding]; other site 319224008112 active site 319224008113 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 319224008114 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 319224008115 DNA binding and oxoG recognition site [nucleotide binding] 319224008116 oxidative damage protection protein; Provisional; Region: PRK05408 319224008117 hypothetical protein; Provisional; Region: PRK03757 319224008118 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 319224008119 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 319224008120 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 319224008121 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 319224008122 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 319224008123 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008124 S-adenosylmethionine binding site [chemical binding]; other site 319224008125 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 319224008126 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 319224008127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319224008128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224008129 NAD(P) binding site [chemical binding]; other site 319224008130 active site 319224008131 SnoaL-like domain; Region: SnoaL_2; pfam12680 319224008132 DNA photolyase; Region: DNA_photolyase; pfam00875 319224008133 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 319224008134 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 319224008135 DNA binding residues [nucleotide binding] 319224008136 Protein of unknown function (DUF523); Region: DUF523; pfam04463 319224008137 Uncharacterized conserved protein [Function unknown]; Region: COG3272 319224008138 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 319224008139 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 319224008140 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 319224008141 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319224008142 ATP binding site [chemical binding]; other site 319224008143 Mg++ binding site [ion binding]; other site 319224008144 motif III; other site 319224008145 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 319224008146 nucleotide binding region [chemical binding]; other site 319224008147 ATP-binding site [chemical binding]; other site 319224008148 AAA domain; Region: AAA_32; pfam13654 319224008149 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 319224008150 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 319224008151 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 319224008152 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 319224008153 FMN binding site [chemical binding]; other site 319224008154 active site 319224008155 substrate binding site [chemical binding]; other site 319224008156 catalytic residue [active] 319224008157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224008158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224008159 Protein of unknown function (DUF2375); Region: DUF2375; pfam09558 319224008160 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224008161 dimer interface [polypeptide binding]; other site 319224008162 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 319224008163 putative CheW interface [polypeptide binding]; other site 319224008164 hypothetical protein; Provisional; Region: PRK12378 319224008165 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 319224008166 30S subunit binding site; other site 319224008167 PAS domain; Region: PAS_9; pfam13426 319224008168 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 319224008169 putative active site [active] 319224008170 heme pocket [chemical binding]; other site 319224008171 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224008172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224008173 dimer interface [polypeptide binding]; other site 319224008174 putative CheW interface [polypeptide binding]; other site 319224008175 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 319224008176 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 319224008177 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 319224008178 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 319224008179 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 319224008180 OsmC-like protein; Region: OsmC; cl00767 319224008181 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 319224008182 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224008183 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224008184 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 319224008185 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 319224008186 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 319224008187 protein binding site [polypeptide binding]; other site 319224008188 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 319224008189 Domain interface; other site 319224008190 Peptide binding site; other site 319224008191 Active site tetrad [active] 319224008192 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 319224008193 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224008194 substrate binding pocket [chemical binding]; other site 319224008195 membrane-bound complex binding site; other site 319224008196 hinge residues; other site 319224008197 threonine synthase; Validated; Region: PRK09225 319224008198 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 319224008199 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319224008200 catalytic residue [active] 319224008201 homoserine kinase; Provisional; Region: PRK01212 319224008202 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 319224008203 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 319224008204 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 319224008205 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 319224008206 putative catalytic residues [active] 319224008207 putative nucleotide binding site [chemical binding]; other site 319224008208 putative aspartate binding site [chemical binding]; other site 319224008209 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 319224008210 dimer interface [polypeptide binding]; other site 319224008211 putative threonine allosteric regulatory site; other site 319224008212 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 319224008213 putative threonine allosteric regulatory site; other site 319224008214 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 319224008215 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 319224008216 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 319224008217 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224008218 Trp repressor protein; Region: Trp_repressor; pfam01371 319224008219 Cytochrome C' Region: Cytochrom_C_2; pfam01322 319224008220 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 319224008221 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 319224008222 30S subunit binding site; other site 319224008223 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 319224008224 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 319224008225 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 319224008226 HIGH motif; other site 319224008227 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 319224008228 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 319224008229 active site 319224008230 KMSKS motif; other site 319224008231 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 319224008232 tRNA binding surface [nucleotide binding]; other site 319224008233 anticodon binding site; other site 319224008234 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 319224008235 carbon storage regulator; Provisional; Region: PRK01712 319224008236 aspartate kinase; Reviewed; Region: PRK06635 319224008237 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 319224008238 putative nucleotide binding site [chemical binding]; other site 319224008239 putative catalytic residues [active] 319224008240 putative Mg ion binding site [ion binding]; other site 319224008241 putative aspartate binding site [chemical binding]; other site 319224008242 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 319224008243 putative allosteric regulatory residue; other site 319224008244 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 319224008245 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 319224008246 motif 1; other site 319224008247 active site 319224008248 motif 2; other site 319224008249 motif 3; other site 319224008250 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 319224008251 DHHA1 domain; Region: DHHA1; pfam02272 319224008252 RecX family; Region: RecX; pfam02631 319224008253 recombinase A; Provisional; Region: recA; PRK09354 319224008254 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 319224008255 hexamer interface [polypeptide binding]; other site 319224008256 Walker A motif; other site 319224008257 ATP binding site [chemical binding]; other site 319224008258 Walker B motif; other site 319224008259 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 319224008260 MutS domain I; Region: MutS_I; pfam01624 319224008261 MutS domain II; Region: MutS_II; pfam05188 319224008262 MutS domain III; Region: MutS_III; pfam05192 319224008263 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 319224008264 Walker A/P-loop; other site 319224008265 ATP binding site [chemical binding]; other site 319224008266 Q-loop/lid; other site 319224008267 ABC transporter signature motif; other site 319224008268 Walker B; other site 319224008269 D-loop; other site 319224008270 H-loop/switch region; other site 319224008271 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 319224008272 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 319224008273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224008274 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 319224008275 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 319224008276 DNA binding residues [nucleotide binding] 319224008277 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 319224008278 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224008279 Peptidase family M23; Region: Peptidase_M23; pfam01551 319224008280 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 319224008281 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008282 S-adenosylmethionine binding site [chemical binding]; other site 319224008283 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 319224008284 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 319224008285 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 319224008286 Permutation of conserved domain; other site 319224008287 active site 319224008288 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 319224008289 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 319224008290 homotrimer interaction site [polypeptide binding]; other site 319224008291 zinc binding site [ion binding]; other site 319224008292 CDP-binding sites; other site 319224008293 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 319224008294 substrate binding site; other site 319224008295 dimer interface; other site 319224008296 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 319224008297 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 319224008298 enolase; Provisional; Region: eno; PRK00077 319224008299 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 319224008300 dimer interface [polypeptide binding]; other site 319224008301 metal binding site [ion binding]; metal-binding site 319224008302 substrate binding pocket [chemical binding]; other site 319224008303 CTP synthetase; Validated; Region: pyrG; PRK05380 319224008304 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 319224008305 Catalytic site [active] 319224008306 active site 319224008307 UTP binding site [chemical binding]; other site 319224008308 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 319224008309 active site 319224008310 putative oxyanion hole; other site 319224008311 catalytic triad [active] 319224008312 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 319224008313 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 319224008314 homodimer interface [polypeptide binding]; other site 319224008315 metal binding site [ion binding]; metal-binding site 319224008316 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 319224008317 homodimer interface [polypeptide binding]; other site 319224008318 active site 319224008319 putative chemical substrate binding site [chemical binding]; other site 319224008320 metal binding site [ion binding]; metal-binding site 319224008321 agmatine deiminase; Provisional; Region: PRK13551 319224008322 agmatine deiminase; Region: agmatine_aguA; TIGR03380 319224008323 amidase; Validated; Region: PRK06565 319224008324 Amidase; Region: Amidase; cl11426 319224008325 Amidase; Region: Amidase; cl11426 319224008326 methionine synthase; Provisional; Region: PRK01207 319224008327 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 319224008328 substrate binding site [chemical binding]; other site 319224008329 THF binding site; other site 319224008330 zinc-binding site [ion binding]; other site 319224008331 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 319224008332 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 319224008333 AAA domain; Region: AAA_11; pfam13086 319224008334 Part of AAA domain; Region: AAA_19; pfam13245 319224008335 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 319224008336 AAA domain; Region: AAA_12; pfam13087 319224008337 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 319224008338 putative active site [active] 319224008339 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 319224008340 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 319224008341 HD domain; Region: HD_4; pfam13328 319224008342 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 319224008343 synthetase active site [active] 319224008344 NTP binding site [chemical binding]; other site 319224008345 metal binding site [ion binding]; metal-binding site 319224008346 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 319224008347 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 319224008348 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 319224008349 TRAM domain; Region: TRAM; pfam01938 319224008350 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008351 S-adenosylmethionine binding site [chemical binding]; other site 319224008352 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 319224008353 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 319224008354 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 319224008355 dimerization interface [polypeptide binding]; other site 319224008356 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 319224008357 dimer interface [polypeptide binding]; other site 319224008358 phosphorylation site [posttranslational modification] 319224008359 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224008360 ATP binding site [chemical binding]; other site 319224008361 Mg2+ binding site [ion binding]; other site 319224008362 G-X-G motif; other site 319224008363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224008364 active site 319224008365 phosphorylation site [posttranslational modification] 319224008366 intermolecular recognition site; other site 319224008367 dimerization interface [polypeptide binding]; other site 319224008368 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 319224008369 putative binding surface; other site 319224008370 active site 319224008371 Protein of unknown function (DUF416); Region: DUF416; pfam04222 319224008372 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224008373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224008374 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 319224008375 putative effector binding pocket; other site 319224008376 dimerization interface [polypeptide binding]; other site 319224008377 Predicted permeases [General function prediction only]; Region: COG0679 319224008378 recombination and repair protein; Provisional; Region: PRK10869 319224008379 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 319224008380 Walker A/P-loop; other site 319224008381 ATP binding site [chemical binding]; other site 319224008382 Q-loop/lid; other site 319224008383 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 319224008384 ABC transporter signature motif; other site 319224008385 Walker B; other site 319224008386 D-loop; other site 319224008387 H-loop/switch region; other site 319224008388 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 319224008389 tetramer interfaces [polypeptide binding]; other site 319224008390 binuclear metal-binding site [ion binding]; other site 319224008391 thiamine monophosphate kinase; Provisional; Region: PRK05731 319224008392 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 319224008393 ATP binding site [chemical binding]; other site 319224008394 dimerization interface [polypeptide binding]; other site 319224008395 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 319224008396 putative RNA binding site [nucleotide binding]; other site 319224008397 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 319224008398 homopentamer interface [polypeptide binding]; other site 319224008399 active site 319224008400 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 319224008401 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 319224008402 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 319224008403 dimerization interface [polypeptide binding]; other site 319224008404 active site 319224008405 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 319224008406 Lumazine binding domain; Region: Lum_binding; pfam00677 319224008407 Lumazine binding domain; Region: Lum_binding; pfam00677 319224008408 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 319224008409 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 319224008410 catalytic motif [active] 319224008411 Zn binding site [ion binding]; other site 319224008412 RibD C-terminal domain; Region: RibD_C; cl17279 319224008413 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 319224008414 ATP cone domain; Region: ATP-cone; pfam03477 319224008415 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 319224008416 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 319224008417 dimer interface [polypeptide binding]; other site 319224008418 active site 319224008419 glycine-pyridoxal phosphate binding site [chemical binding]; other site 319224008420 folate binding site [chemical binding]; other site 319224008421 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 319224008422 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224008423 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224008424 ABC transporter; Region: ABC_tran_2; pfam12848 319224008425 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224008426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224008427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224008428 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 319224008429 putative effector binding pocket; other site 319224008430 dimerization interface [polypeptide binding]; other site 319224008431 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 319224008432 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 319224008433 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 319224008434 catalytic residues [active] 319224008435 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 319224008436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224008437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224008438 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224008439 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224008440 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224008441 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 319224008442 putative substrate translocation pore; other site 319224008443 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 319224008444 Helix-turn-helix domain; Region: HTH_18; pfam12833 319224008445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224008446 Uncharacterized conserved protein [Function unknown]; Region: COG1432 319224008447 LabA_like proteins; Region: LabA_like/DUF88; cl10034 319224008448 putative metal binding site [ion binding]; other site 319224008449 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 319224008450 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224008451 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224008452 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224008453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224008454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224008455 OsmC-like protein; Region: OsmC; pfam02566 319224008456 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224008457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224008458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224008459 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 319224008460 dimerization interface [polypeptide binding]; other site 319224008461 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 319224008462 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 319224008463 GDP-binding site [chemical binding]; other site 319224008464 ACT binding site; other site 319224008465 IMP binding site; other site 319224008466 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 319224008467 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224008468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224008469 active site 319224008470 phosphorylation site [posttranslational modification] 319224008471 intermolecular recognition site; other site 319224008472 dimerization interface [polypeptide binding]; other site 319224008473 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 319224008474 active site 319224008475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224008476 metal binding site [ion binding]; metal-binding site 319224008477 active site 319224008478 I-site; other site 319224008479 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 319224008480 HDOD domain; Region: HDOD; pfam08668 319224008481 putative protease; Provisional; Region: PRK15452 319224008482 Peptidase family U32; Region: Peptidase_U32; pfam01136 319224008483 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 319224008484 SCP-2 sterol transfer family; Region: SCP2; cl01225 319224008485 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 319224008486 Peptidase family U32; Region: Peptidase_U32; pfam01136 319224008487 putative protease; Provisional; Region: PRK15447 319224008488 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 319224008489 Predicted membrane protein [Function unknown]; Region: COG3371 319224008490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 319224008491 Nucleoside recognition; Region: Gate; pfam07670 319224008492 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 319224008493 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319224008494 putative active site [active] 319224008495 putative metal binding site [ion binding]; other site 319224008496 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 319224008497 putative acyl-acceptor binding pocket; other site 319224008498 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 319224008499 FOG: CBS domain [General function prediction only]; Region: COG0517 319224008500 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 319224008501 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 319224008502 PilZ domain; Region: PilZ; pfam07238 319224008503 DNA repair protein RadA; Provisional; Region: PRK11823 319224008504 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 319224008505 Walker A motif/ATP binding site; other site 319224008506 ATP binding site [chemical binding]; other site 319224008507 Walker B motif; other site 319224008508 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 319224008509 PilZ domain; Region: PilZ; pfam07238 319224008510 PilZ domain; Region: PilZ; pfam07238 319224008511 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319224008512 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319224008513 phosphoserine phosphatase SerB; Region: serB; TIGR00338 319224008514 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 319224008515 motif II; other site 319224008516 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 319224008517 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 319224008518 phosphopentomutase; Provisional; Region: PRK05362 319224008519 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 319224008520 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 319224008521 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 319224008522 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 319224008523 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 319224008524 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 319224008525 intersubunit interface [polypeptide binding]; other site 319224008526 active site 319224008527 catalytic residue [active] 319224008528 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 319224008529 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 319224008530 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 319224008531 Nucleoside recognition; Region: Gate; pfam07670 319224008532 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 319224008533 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 319224008534 active site 319224008535 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 319224008536 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 319224008537 G1 box; other site 319224008538 putative GEF interaction site [polypeptide binding]; other site 319224008539 GTP/Mg2+ binding site [chemical binding]; other site 319224008540 Switch I region; other site 319224008541 G2 box; other site 319224008542 G3 box; other site 319224008543 Switch II region; other site 319224008544 G4 box; other site 319224008545 G5 box; other site 319224008546 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 319224008547 lipoprotein NlpI; Provisional; Region: PRK11189 319224008548 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 319224008549 binding surface 319224008550 TPR motif; other site 319224008551 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 319224008552 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 319224008553 RNase E interface [polypeptide binding]; other site 319224008554 trimer interface [polypeptide binding]; other site 319224008555 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 319224008556 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 319224008557 RNase E interface [polypeptide binding]; other site 319224008558 trimer interface [polypeptide binding]; other site 319224008559 active site 319224008560 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 319224008561 putative nucleic acid binding region [nucleotide binding]; other site 319224008562 G-X-X-G motif; other site 319224008563 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 319224008564 RNA binding site [nucleotide binding]; other site 319224008565 domain interface; other site 319224008566 biofilm formation regulator HmsP; Provisional; Region: PRK11829 319224008567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224008568 metal binding site [ion binding]; metal-binding site 319224008569 active site 319224008570 I-site; other site 319224008571 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 319224008572 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 319224008573 16S/18S rRNA binding site [nucleotide binding]; other site 319224008574 S13e-L30e interaction site [polypeptide binding]; other site 319224008575 25S rRNA binding site [nucleotide binding]; other site 319224008576 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 319224008577 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 319224008578 RNA binding site [nucleotide binding]; other site 319224008579 active site 319224008580 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 319224008581 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 319224008582 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 319224008583 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 319224008584 translation initiation factor IF-2; Region: IF-2; TIGR00487 319224008585 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 319224008586 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 319224008587 G1 box; other site 319224008588 putative GEF interaction site [polypeptide binding]; other site 319224008589 GTP/Mg2+ binding site [chemical binding]; other site 319224008590 Switch I region; other site 319224008591 G2 box; other site 319224008592 G3 box; other site 319224008593 Switch II region; other site 319224008594 G4 box; other site 319224008595 G5 box; other site 319224008596 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 319224008597 Translation-initiation factor 2; Region: IF-2; pfam11987 319224008598 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 319224008599 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 319224008600 NusA N-terminal domain; Region: NusA_N; pfam08529 319224008601 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 319224008602 RNA binding site [nucleotide binding]; other site 319224008603 homodimer interface [polypeptide binding]; other site 319224008604 NusA-like KH domain; Region: KH_5; pfam13184 319224008605 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 319224008606 G-X-X-G motif; other site 319224008607 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 319224008608 ribosome maturation protein RimP; Reviewed; Region: PRK00092 319224008609 Sm and related proteins; Region: Sm_like; cl00259 319224008610 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 319224008611 putative oligomer interface [polypeptide binding]; other site 319224008612 putative RNA binding site [nucleotide binding]; other site 319224008613 Preprotein translocase SecG subunit; Region: SecG; pfam03840 319224008614 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 319224008615 triosephosphate isomerase; Provisional; Region: PRK14567 319224008616 substrate binding site [chemical binding]; other site 319224008617 dimer interface [polypeptide binding]; other site 319224008618 catalytic triad [active] 319224008619 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 319224008620 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 319224008621 active site 319224008622 substrate binding site [chemical binding]; other site 319224008623 metal binding site [ion binding]; metal-binding site 319224008624 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 319224008625 dihydropteroate synthase; Region: DHPS; TIGR01496 319224008626 substrate binding pocket [chemical binding]; other site 319224008627 dimer interface [polypeptide binding]; other site 319224008628 inhibitor binding site; inhibition site 319224008629 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 319224008630 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 319224008631 Walker A motif; other site 319224008632 ATP binding site [chemical binding]; other site 319224008633 Walker B motif; other site 319224008634 arginine finger; other site 319224008635 Peptidase family M41; Region: Peptidase_M41; pfam01434 319224008636 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 319224008637 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008638 S-adenosylmethionine binding site [chemical binding]; other site 319224008639 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 319224008640 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 319224008641 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 319224008642 Protein export membrane protein; Region: SecD_SecF; pfam02355 319224008643 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 319224008644 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 319224008645 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 319224008646 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 319224008647 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 319224008648 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319224008649 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 319224008650 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 319224008651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 319224008652 GTP-binding protein YchF; Reviewed; Region: PRK09601 319224008653 YchF GTPase; Region: YchF; cd01900 319224008654 G1 box; other site 319224008655 GTP/Mg2+ binding site [chemical binding]; other site 319224008656 Switch I region; other site 319224008657 G2 box; other site 319224008658 Switch II region; other site 319224008659 G3 box; other site 319224008660 G4 box; other site 319224008661 G5 box; other site 319224008662 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 319224008663 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 319224008664 putative active site [active] 319224008665 catalytic residue [active] 319224008666 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 319224008667 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 319224008668 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 319224008669 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319224008670 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 319224008671 FeS/SAM binding site; other site 319224008672 TRAM domain; Region: TRAM; pfam01938 319224008673 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 319224008674 PhoH-like protein; Region: PhoH; pfam02562 319224008675 metal-binding heat shock protein; Provisional; Region: PRK00016 319224008676 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 319224008677 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 319224008678 Transporter associated domain; Region: CorC_HlyC; smart01091 319224008679 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 319224008680 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 319224008681 putative active site [active] 319224008682 catalytic triad [active] 319224008683 putative dimer interface [polypeptide binding]; other site 319224008684 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008685 S-adenosylmethionine binding site [chemical binding]; other site 319224008686 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 319224008687 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 319224008688 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 319224008689 HIGH motif; other site 319224008690 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 319224008691 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319224008692 active site 319224008693 KMSKS motif; other site 319224008694 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 319224008695 tRNA binding surface [nucleotide binding]; other site 319224008696 Lipopolysaccharide-assembly; Region: LptE; cl01125 319224008697 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 319224008698 DNA polymerase III, delta subunit; Region: holA; TIGR01128 319224008699 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 319224008700 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 319224008701 active site 319224008702 (T/H)XGH motif; other site 319224008703 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 319224008704 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 319224008705 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 319224008706 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 319224008707 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 319224008708 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 319224008709 Transglycosylase SLT domain; Region: SLT_2; pfam13406 319224008710 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 319224008711 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224008712 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 319224008713 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 319224008714 Sporulation related domain; Region: SPOR; pfam05036 319224008715 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 319224008716 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 319224008717 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 319224008718 hypothetical protein; Provisional; Region: PRK04998 319224008719 lipoate-protein ligase B; Provisional; Region: PRK14342 319224008720 lipoyl synthase; Provisional; Region: PRK05481 319224008721 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 319224008722 FeS/SAM binding site; other site 319224008723 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 319224008724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224008725 Coenzyme A binding pocket [chemical binding]; other site 319224008726 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 319224008727 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 319224008728 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 319224008729 dimerization interface [polypeptide binding]; other site 319224008730 DPS ferroxidase diiron center [ion binding]; other site 319224008731 ion pore; other site 319224008732 Predicted membrane protein [Function unknown]; Region: COG3503 319224008733 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319224008734 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 319224008735 N-terminal plug; other site 319224008736 ligand-binding site [chemical binding]; other site 319224008737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 319224008738 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 319224008739 Integrase core domain; Region: rve; pfam00665 319224008740 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 319224008741 binding surface 319224008742 TPR motif; other site 319224008743 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 319224008744 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 319224008745 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 319224008746 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319224008747 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319224008748 active site 319224008749 metal binding site [ion binding]; metal-binding site 319224008750 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 319224008751 active site 319224008752 Int/Topo IB signature motif; other site 319224008753 catalytic residues [active] 319224008754 DNA binding site [nucleotide binding] 319224008755 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 319224008756 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 319224008757 active site 319224008758 catalytic residues [active] 319224008759 Int/Topo IB signature motif; other site 319224008760 DNA binding site [nucleotide binding] 319224008761 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 319224008762 Walker A motif; other site 319224008763 ATP binding site [chemical binding]; other site 319224008764 Walker B motif; other site 319224008765 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319224008766 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 319224008767 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 319224008768 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 319224008769 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 319224008770 active site 319224008771 DNA binding site [nucleotide binding] 319224008772 Int/Topo IB signature motif; other site 319224008773 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 319224008774 salt bridge; other site 319224008775 non-specific DNA binding site [nucleotide binding]; other site 319224008776 sequence-specific DNA binding site [nucleotide binding]; other site 319224008777 integrase; Provisional; Region: PRK09692 319224008778 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 319224008779 active site 319224008780 Int/Topo IB signature motif; other site 319224008781 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 319224008782 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 319224008783 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 319224008784 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 319224008785 HsdM N-terminal domain; Region: HsdM_N; pfam12161 319224008786 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 319224008787 Methyltransferase domain; Region: Methyltransf_26; pfam13659 319224008788 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224008789 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 319224008790 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224008791 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 319224008792 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 319224008793 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 319224008794 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 319224008795 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 319224008796 ATP binding site [chemical binding]; other site 319224008797 putative Mg++ binding site [ion binding]; other site 319224008798 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 319224008799 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319224008800 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 319224008801 non-specific DNA binding site [nucleotide binding]; other site 319224008802 salt bridge; other site 319224008803 sequence-specific DNA binding site [nucleotide binding]; other site 319224008804 EcsC protein family; Region: EcsC; pfam12787 319224008805 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 319224008806 non-specific DNA binding site [nucleotide binding]; other site 319224008807 salt bridge; other site 319224008808 sequence-specific DNA binding site [nucleotide binding]; other site 319224008809 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 319224008810 HipA-like N-terminal domain; Region: HipA_N; pfam07805 319224008811 HipA-like C-terminal domain; Region: HipA_C; pfam07804 319224008812 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 319224008813 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 319224008814 hypothetical protein; Provisional; Region: yieM; PRK10997 319224008815 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 319224008816 metal ion-dependent adhesion site (MIDAS); other site 319224008817 regulatory ATPase RavA; Provisional; Region: PRK13531 319224008818 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 319224008819 Walker A motif; other site 319224008820 ATP binding site [chemical binding]; other site 319224008821 Walker B motif; other site 319224008822 arginine finger; other site 319224008823 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319224008824 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 319224008825 Walker A motif; other site 319224008826 ATP binding site [chemical binding]; other site 319224008827 Walker B motif; other site 319224008828 arginine finger; other site 319224008829 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224008830 Methyltransferase domain; Region: Methyltransf_31; pfam13847 319224008831 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008832 S-adenosylmethionine binding site [chemical binding]; other site 319224008833 HNH endonuclease; Region: HNH_4; pfam13395 319224008834 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 319224008835 SEC-C motif; Region: SEC-C; pfam02810 319224008836 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 319224008837 catalytic site [active] 319224008838 putative active site [active] 319224008839 putative substrate binding site [chemical binding]; other site 319224008840 Protein of unknown function (DUF808); Region: DUF808; pfam05661 319224008841 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 319224008842 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319224008843 active site 319224008844 dimer interface [polypeptide binding]; other site 319224008845 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 319224008846 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 319224008847 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 319224008848 putative RNA binding site [nucleotide binding]; other site 319224008849 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224008850 S-adenosylmethionine binding site [chemical binding]; other site 319224008851 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319224008852 putative metal binding site [ion binding]; other site 319224008853 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319224008854 putative catalytic site [active] 319224008855 putative phosphate binding site [ion binding]; other site 319224008856 putative metal binding site [ion binding]; other site 319224008857 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 319224008858 MgtE intracellular N domain; Region: MgtE_N; pfam03448 319224008859 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 319224008860 Divalent cation transporter; Region: MgtE; pfam01769 319224008861 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224008862 dimer interface [polypeptide binding]; other site 319224008863 putative CheW interface [polypeptide binding]; other site 319224008864 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 319224008865 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224008866 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 319224008867 substrate binding pocket [chemical binding]; other site 319224008868 membrane-bound complex binding site; other site 319224008869 hinge residues; other site 319224008870 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319224008871 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319224008872 active site 319224008873 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 319224008874 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319224008875 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 319224008876 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 319224008877 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319224008878 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319224008879 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 319224008880 IMP binding site; other site 319224008881 dimer interface [polypeptide binding]; other site 319224008882 interdomain contacts; other site 319224008883 partial ornithine binding site; other site 319224008884 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 319224008885 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 319224008886 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 319224008887 catalytic site [active] 319224008888 subunit interface [polypeptide binding]; other site 319224008889 dihydrodipicolinate reductase; Provisional; Region: PRK00048 319224008890 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 319224008891 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 319224008892 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 319224008893 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 319224008894 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224008895 Peptidase family M48; Region: Peptidase_M48; pfam01435 319224008896 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 319224008897 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 319224008898 ATP binding site [chemical binding]; other site 319224008899 putative Mg++ binding site [ion binding]; other site 319224008900 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 319224008901 nucleotide binding region [chemical binding]; other site 319224008902 ATP-binding site [chemical binding]; other site 319224008903 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 319224008904 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 319224008905 dimer interface [polypeptide binding]; other site 319224008906 active site 319224008907 metal binding site [ion binding]; metal-binding site 319224008908 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 319224008909 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 319224008910 NAD(P) binding site [chemical binding]; other site 319224008911 catalytic residues [active] 319224008912 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 319224008913 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 319224008914 cobalamin binding residues [chemical binding]; other site 319224008915 putative BtuC binding residues; other site 319224008916 dimer interface [polypeptide binding]; other site 319224008917 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 319224008918 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224008919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224008920 Coenzyme A binding pocket [chemical binding]; other site 319224008921 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 319224008922 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 319224008923 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 319224008924 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 319224008925 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 319224008926 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 319224008927 homodimer interface [polypeptide binding]; other site 319224008928 Walker A motif; other site 319224008929 ATP binding site [chemical binding]; other site 319224008930 hydroxycobalamin binding site [chemical binding]; other site 319224008931 Walker B motif; other site 319224008932 cobyric acid synthase; Provisional; Region: PRK00784 319224008933 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 319224008934 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 319224008935 catalytic triad [active] 319224008936 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 319224008937 homotrimer interface [polypeptide binding]; other site 319224008938 Walker A motif; other site 319224008939 GTP binding site [chemical binding]; other site 319224008940 Walker B motif; other site 319224008941 cobalamin synthase; Reviewed; Region: cobS; PRK00235 319224008942 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 319224008943 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 319224008944 putative dimer interface [polypeptide binding]; other site 319224008945 active site pocket [active] 319224008946 putative cataytic base [active] 319224008947 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 319224008948 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 319224008949 ABC-ATPase subunit interface; other site 319224008950 dimer interface [polypeptide binding]; other site 319224008951 putative PBP binding regions; other site 319224008952 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 319224008953 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 319224008954 Walker A/P-loop; other site 319224008955 ATP binding site [chemical binding]; other site 319224008956 Q-loop/lid; other site 319224008957 ABC transporter signature motif; other site 319224008958 Walker B; other site 319224008959 D-loop; other site 319224008960 H-loop/switch region; other site 319224008961 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 319224008962 catalytic core [active] 319224008963 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 319224008964 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 319224008965 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 319224008966 substrate binding pocket [chemical binding]; other site 319224008967 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 319224008968 B12 binding site [chemical binding]; other site 319224008969 cobalt ligand [ion binding]; other site 319224008970 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 319224008971 Protein of unknown function DUF262; Region: DUF262; pfam03235 319224008972 PAS domain; Region: PAS_9; pfam13426 319224008973 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 319224008974 PAS domain; Region: PAS_9; pfam13426 319224008975 putative active site [active] 319224008976 heme pocket [chemical binding]; other site 319224008977 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224008978 dimer interface [polypeptide binding]; other site 319224008979 putative CheW interface [polypeptide binding]; other site 319224008980 chaperone protein DnaJ; Provisional; Region: PRK10767 319224008981 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 319224008982 HSP70 interaction site [polypeptide binding]; other site 319224008983 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 319224008984 substrate binding site [polypeptide binding]; other site 319224008985 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 319224008986 Zn binding sites [ion binding]; other site 319224008987 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 319224008988 dimer interface [polypeptide binding]; other site 319224008989 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 319224008990 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 319224008991 nucleotide binding site [chemical binding]; other site 319224008992 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 319224008993 EamA-like transporter family; Region: EamA; pfam00892 319224008994 EamA-like transporter family; Region: EamA; pfam00892 319224008995 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 319224008996 putative deacylase active site [active] 319224008997 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 319224008998 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 319224008999 putative catalytic cysteine [active] 319224009000 gamma-glutamyl kinase; Provisional; Region: PRK05429 319224009001 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 319224009002 nucleotide binding site [chemical binding]; other site 319224009003 homotetrameric interface [polypeptide binding]; other site 319224009004 putative phosphate binding site [ion binding]; other site 319224009005 putative allosteric binding site; other site 319224009006 PUA domain; Region: PUA; pfam01472 319224009007 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 319224009008 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 319224009009 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 319224009010 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224009011 substrate binding pocket [chemical binding]; other site 319224009012 membrane-bound complex binding site; other site 319224009013 hinge residues; other site 319224009014 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 319224009015 Ligand Binding Site [chemical binding]; other site 319224009016 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 319224009017 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 319224009018 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 319224009019 NAD(P) binding site [chemical binding]; other site 319224009020 catalytic residues [active] 319224009021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224009022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224009023 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 319224009024 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 319224009025 Curli assembly protein CsgE; Region: CsgE; pfam10627 319224009026 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 319224009027 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 319224009028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224009029 ATP binding site [chemical binding]; other site 319224009030 Mg2+ binding site [ion binding]; other site 319224009031 G-X-G motif; other site 319224009032 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319224009033 FtsX-like permease family; Region: FtsX; pfam02687 319224009034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319224009035 FtsX-like permease family; Region: FtsX; pfam02687 319224009036 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319224009037 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319224009038 Walker A/P-loop; other site 319224009039 ATP binding site [chemical binding]; other site 319224009040 Q-loop/lid; other site 319224009041 ABC transporter signature motif; other site 319224009042 Walker B; other site 319224009043 D-loop; other site 319224009044 H-loop/switch region; other site 319224009045 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224009046 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224009047 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224009048 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 319224009049 active site 319224009050 substrate binding pocket [chemical binding]; other site 319224009051 dimer interface [polypeptide binding]; other site 319224009052 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 319224009053 FRG domain; Region: FRG; pfam08867 319224009054 glutamate racemase; Provisional; Region: PRK00865 319224009055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224009056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 319224009057 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 319224009058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224009059 Coenzyme A binding pocket [chemical binding]; other site 319224009060 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 319224009061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224009062 DNA-binding site [nucleotide binding]; DNA binding site 319224009063 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 319224009064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224009065 homodimer interface [polypeptide binding]; other site 319224009066 catalytic residue [active] 319224009067 MAPEG family; Region: MAPEG; cl09190 319224009068 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 319224009069 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224009070 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 319224009071 CoenzymeA binding site [chemical binding]; other site 319224009072 subunit interaction site [polypeptide binding]; other site 319224009073 PHB binding site; other site 319224009074 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 319224009075 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 319224009076 generic binding surface II; other site 319224009077 generic binding surface I; other site 319224009078 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319224009079 putative catalytic site [active] 319224009080 putative metal binding site [ion binding]; other site 319224009081 putative phosphate binding site [ion binding]; other site 319224009082 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 319224009083 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 319224009084 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224009085 FOG: WD40 repeat [General function prediction only]; Region: COG2319 319224009086 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 319224009087 structural tetrad; other site 319224009088 SlyX; Region: SlyX; pfam04102 319224009089 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 319224009090 active site 319224009091 catalytic residues [active] 319224009092 metal binding site [ion binding]; metal-binding site 319224009093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 319224009094 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 319224009095 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 319224009096 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 319224009097 Zn binding site [ion binding]; other site 319224009098 Cache domain; Region: Cache_1; pfam02743 319224009099 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 319224009100 dimerization interface [polypeptide binding]; other site 319224009101 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224009102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224009103 dimer interface [polypeptide binding]; other site 319224009104 putative CheW interface [polypeptide binding]; other site 319224009105 PAS domain S-box; Region: sensory_box; TIGR00229 319224009106 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 319224009107 putative active site [active] 319224009108 heme pocket [chemical binding]; other site 319224009109 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224009110 GAF domain; Region: GAF; pfam01590 319224009111 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224009112 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224009113 metal binding site [ion binding]; metal-binding site 319224009114 active site 319224009115 I-site; other site 319224009116 Protein of unknown function DUF72; Region: DUF72; cl00777 319224009117 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 319224009118 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 319224009119 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 319224009120 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 319224009121 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 319224009122 Carbon starvation protein CstA; Region: CstA; pfam02554 319224009123 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 319224009124 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 319224009125 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 319224009126 LrgB-like family; Region: LrgB; pfam04172 319224009127 LrgA family; Region: LrgA; pfam03788 319224009128 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 319224009129 G4 box; other site 319224009130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224009131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224009132 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 319224009133 putative dimerization interface [polypeptide binding]; other site 319224009134 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 319224009135 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319224009136 substrate binding pocket [chemical binding]; other site 319224009137 membrane-bound complex binding site; other site 319224009138 hinge residues; other site 319224009139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224009140 dimer interface [polypeptide binding]; other site 319224009141 conserved gate region; other site 319224009142 putative PBP binding loops; other site 319224009143 ABC-ATPase subunit interface; other site 319224009144 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 319224009145 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 319224009146 Walker A/P-loop; other site 319224009147 ATP binding site [chemical binding]; other site 319224009148 Q-loop/lid; other site 319224009149 ABC transporter signature motif; other site 319224009150 Walker B; other site 319224009151 D-loop; other site 319224009152 H-loop/switch region; other site 319224009153 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 319224009154 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 319224009155 FMN binding site [chemical binding]; other site 319224009156 dimer interface [polypeptide binding]; other site 319224009157 DNA-J related protein; Region: DNAJ_related; pfam12339 319224009158 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 319224009159 HSP70 interaction site [polypeptide binding]; other site 319224009160 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 319224009161 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 319224009162 catalytic residues [active] 319224009163 hinge region; other site 319224009164 alpha helical domain; other site 319224009165 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 319224009166 Flavodoxin domain; Region: Flavodoxin_5; cl17428 319224009167 TIGR03899 family protein; Region: TIGR03899 319224009168 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 319224009169 ligand-binding site [chemical binding]; other site 319224009170 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 319224009171 TrkA-C domain; Region: TrkA_C; pfam02080 319224009172 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 319224009173 TrkA-C domain; Region: TrkA_C; pfam02080 319224009174 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 319224009175 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 319224009176 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 319224009177 CysD dimerization site [polypeptide binding]; other site 319224009178 G1 box; other site 319224009179 putative GEF interaction site [polypeptide binding]; other site 319224009180 GTP/Mg2+ binding site [chemical binding]; other site 319224009181 Switch I region; other site 319224009182 G2 box; other site 319224009183 G3 box; other site 319224009184 Switch II region; other site 319224009185 G4 box; other site 319224009186 G5 box; other site 319224009187 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 319224009188 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 319224009189 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 319224009190 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 319224009191 Active Sites [active] 319224009192 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 319224009193 active site 319224009194 SAM binding site [chemical binding]; other site 319224009195 homodimer interface [polypeptide binding]; other site 319224009196 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 319224009197 dimerization interface [polypeptide binding]; other site 319224009198 substrate binding site [chemical binding]; other site 319224009199 active site 319224009200 calcium binding site [ion binding]; other site 319224009201 Secreted phosphoprotein 24 (Spp-24); Region: Spp-24; pfam07448 319224009202 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 319224009203 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 319224009204 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 319224009205 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 319224009206 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 319224009207 dimer interface [polypeptide binding]; other site 319224009208 putative anticodon binding site; other site 319224009209 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 319224009210 motif 1; other site 319224009211 active site 319224009212 motif 2; other site 319224009213 motif 3; other site 319224009214 peptide chain release factor 2; Validated; Region: prfB; PRK00578 319224009215 This domain is found in peptide chain release factors; Region: PCRF; smart00937 319224009216 RF-1 domain; Region: RF-1; pfam00472 319224009217 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 319224009218 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 319224009219 catalytic loop [active] 319224009220 iron binding site [ion binding]; other site 319224009221 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319224009222 4Fe-4S binding domain; Region: Fer4_6; pfam12837 319224009223 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 319224009224 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 319224009225 [4Fe-4S] binding site [ion binding]; other site 319224009226 molybdopterin cofactor binding site; other site 319224009227 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 319224009228 molybdopterin cofactor binding site; other site 319224009229 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 319224009230 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 319224009231 dimerization interface [polypeptide binding]; other site 319224009232 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224009233 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224009234 dimer interface [polypeptide binding]; other site 319224009235 putative CheW interface [polypeptide binding]; other site 319224009236 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 319224009237 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 319224009238 Chromate transporter; Region: Chromate_transp; pfam02417 319224009239 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 319224009240 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224009241 S-adenosylmethionine binding site [chemical binding]; other site 319224009242 FAD dependent oxidoreductase; Region: DAO; pfam01266 319224009243 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 319224009244 MarR family; Region: MarR; pfam01047 319224009245 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 319224009246 Predicted ATPase [General function prediction only]; Region: COG3903 319224009247 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 319224009248 Transglycosylase; Region: Transgly; cl17702 319224009249 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 319224009250 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 319224009251 Active Sites [active] 319224009252 sulfite reductase subunit beta; Provisional; Region: PRK13504 319224009253 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319224009254 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319224009255 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 319224009256 Flavodoxin; Region: Flavodoxin_1; pfam00258 319224009257 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 319224009258 FAD binding pocket [chemical binding]; other site 319224009259 FAD binding motif [chemical binding]; other site 319224009260 catalytic residues [active] 319224009261 NAD binding pocket [chemical binding]; other site 319224009262 phosphate binding motif [ion binding]; other site 319224009263 beta-alpha-beta structure motif; other site 319224009264 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 319224009265 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 319224009266 ligand binding site [chemical binding]; other site 319224009267 homodimer interface [polypeptide binding]; other site 319224009268 NAD(P) binding site [chemical binding]; other site 319224009269 trimer interface B [polypeptide binding]; other site 319224009270 trimer interface A [polypeptide binding]; other site 319224009271 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 319224009272 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 319224009273 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 319224009274 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224009275 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 319224009276 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 319224009277 putative ribose interaction site [chemical binding]; other site 319224009278 putative ADP binding site [chemical binding]; other site 319224009279 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 319224009280 active site 319224009281 HIGH motif; other site 319224009282 nucleotide binding site [chemical binding]; other site 319224009283 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 319224009284 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 319224009285 putative acyl-acceptor binding pocket; other site 319224009286 potassium/proton antiporter; Reviewed; Region: PRK05326 319224009287 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 319224009288 TrkA-C domain; Region: TrkA_C; pfam02080 319224009289 Transporter associated domain; Region: CorC_HlyC; smart01091 319224009290 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 319224009291 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 319224009292 GAF domain; Region: GAF; pfam01590 319224009293 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 319224009294 Walker A motif; other site 319224009295 ATP binding site [chemical binding]; other site 319224009296 Walker B motif; other site 319224009297 arginine finger; other site 319224009298 L,D-transpeptidase; Provisional; Region: PRK10260 319224009299 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224009300 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 319224009301 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 319224009302 putative active site [active] 319224009303 Zn binding site [ion binding]; other site 319224009304 Predicted ATPase [General function prediction only]; Region: COG1485 319224009305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224009306 Walker A/P-loop; other site 319224009307 ATP binding site [chemical binding]; other site 319224009308 ABC transporter signature motif; other site 319224009309 Walker B; other site 319224009310 D-loop; other site 319224009311 H-loop/switch region; other site 319224009312 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 319224009313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224009314 active site 319224009315 phosphorylation site [posttranslational modification] 319224009316 intermolecular recognition site; other site 319224009317 dimerization interface [polypeptide binding]; other site 319224009318 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 319224009319 DNA binding site [nucleotide binding] 319224009320 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 319224009321 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 319224009322 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 319224009323 Ligand Binding Site [chemical binding]; other site 319224009324 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 319224009325 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 319224009326 dimer interface [polypeptide binding]; other site 319224009327 phosphorylation site [posttranslational modification] 319224009328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224009329 ATP binding site [chemical binding]; other site 319224009330 Mg2+ binding site [ion binding]; other site 319224009331 G-X-G motif; other site 319224009332 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 319224009333 K+-transporting ATPase, c chain; Region: KdpC; cl00944 319224009334 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 319224009335 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224009336 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319224009337 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 319224009338 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224009339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224009340 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 319224009341 dimerization interface [polypeptide binding]; other site 319224009342 Domain of unknown function (DUF897); Region: DUF897; pfam05982 319224009343 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224009344 GAF domain; Region: GAF; pfam01590 319224009345 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224009346 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224009347 metal binding site [ion binding]; metal-binding site 319224009348 active site 319224009349 I-site; other site 319224009350 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 319224009351 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 319224009352 metal binding triad; other site 319224009353 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 319224009354 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 319224009355 metal binding triad; other site 319224009356 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319224009357 spermidine synthase; Provisional; Region: PRK03612 319224009358 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224009359 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 319224009360 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 319224009361 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 319224009362 Ion channel; Region: Ion_trans_2; pfam07885 319224009363 Uncharacterized conserved protein [Function unknown]; Region: COG3025 319224009364 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 319224009365 putative active site [active] 319224009366 putative metal binding residues [ion binding]; other site 319224009367 signature motif; other site 319224009368 putative triphosphate binding site [ion binding]; other site 319224009369 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 319224009370 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 319224009371 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 319224009372 Bacterial SH3 domain homologues; Region: SH3b; smart00287 319224009373 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 319224009374 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 319224009375 Proline dehydrogenase; Region: Pro_dh; pfam01619 319224009376 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 319224009377 Glutamate binding site [chemical binding]; other site 319224009378 NAD binding site [chemical binding]; other site 319224009379 catalytic residues [active] 319224009380 Protein of unknown function, DUF599; Region: DUF599; pfam04654 319224009381 Helix-turn-helix domain; Region: HTH_17; pfam12728 319224009382 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 319224009383 putative active site [active] 319224009384 putative metal binding residues [ion binding]; other site 319224009385 signature motif; other site 319224009386 putative triphosphate binding site [ion binding]; other site 319224009387 dimer interface [polypeptide binding]; other site 319224009388 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 319224009389 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224009390 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224009391 Walker A/P-loop; other site 319224009392 ATP binding site [chemical binding]; other site 319224009393 Q-loop/lid; other site 319224009394 ABC transporter signature motif; other site 319224009395 Walker B; other site 319224009396 D-loop; other site 319224009397 H-loop/switch region; other site 319224009398 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 319224009399 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224009400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224009401 Walker A/P-loop; other site 319224009402 ATP binding site [chemical binding]; other site 319224009403 Q-loop/lid; other site 319224009404 ABC transporter signature motif; other site 319224009405 Walker B; other site 319224009406 D-loop; other site 319224009407 H-loop/switch region; other site 319224009408 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 319224009409 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 319224009410 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 319224009411 ATP binding site [chemical binding]; other site 319224009412 Mg++ binding site [ion binding]; other site 319224009413 motif III; other site 319224009414 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 319224009415 nucleotide binding region [chemical binding]; other site 319224009416 ATP-binding site [chemical binding]; other site 319224009417 PAS domain; Region: PAS_9; pfam13426 319224009418 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 319224009419 putative active site [active] 319224009420 heme pocket [chemical binding]; other site 319224009421 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224009422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224009423 dimer interface [polypeptide binding]; other site 319224009424 putative CheW interface [polypeptide binding]; other site 319224009425 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 319224009426 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 319224009427 ATP binding site [chemical binding]; other site 319224009428 Mg++ binding site [ion binding]; other site 319224009429 motif III; other site 319224009430 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 319224009431 nucleotide binding region [chemical binding]; other site 319224009432 ATP-binding site [chemical binding]; other site 319224009433 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 319224009434 putative RNA binding site [nucleotide binding]; other site 319224009435 Pirin-related protein [General function prediction only]; Region: COG1741 319224009436 Pirin; Region: Pirin; pfam02678 319224009437 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 319224009438 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 319224009439 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 319224009440 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 319224009441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224009442 Walker A/P-loop; other site 319224009443 ATP binding site [chemical binding]; other site 319224009444 Q-loop/lid; other site 319224009445 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224009446 ABC transporter; Region: ABC_tran_2; pfam12848 319224009447 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319224009448 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 319224009449 Uncharacterized conserved protein [Function unknown]; Region: COG3791 319224009450 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 319224009451 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 319224009452 putative hydrolase; Provisional; Region: PRK10985 319224009453 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 319224009454 phosphoribulokinase; Provisional; Region: PRK15453 319224009455 active site 319224009456 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319224009457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224009458 Coenzyme A binding pocket [chemical binding]; other site 319224009459 aminopeptidase B; Provisional; Region: PRK05015 319224009460 Peptidase; Region: DUF3663; pfam12404 319224009461 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 319224009462 interface (dimer of trimers) [polypeptide binding]; other site 319224009463 Substrate-binding/catalytic site; other site 319224009464 Zn-binding sites [ion binding]; other site 319224009465 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 319224009466 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 319224009467 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 319224009468 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 319224009469 active site 319224009470 HIGH motif; other site 319224009471 nucleotide binding site [chemical binding]; other site 319224009472 active site 319224009473 KMSKS motif; other site 319224009474 poly(A) polymerase; Region: pcnB; TIGR01942 319224009475 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 319224009476 active site 319224009477 NTP binding site [chemical binding]; other site 319224009478 metal binding triad [ion binding]; metal-binding site 319224009479 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 319224009480 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 319224009481 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 319224009482 catalytic center binding site [active] 319224009483 ATP binding site [chemical binding]; other site 319224009484 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 319224009485 oligomerization interface [polypeptide binding]; other site 319224009486 active site 319224009487 metal binding site [ion binding]; metal-binding site 319224009488 Pantoate-beta-alanine ligase; Region: PanC; cd00560 319224009489 pantoate--beta-alanine ligase; Region: panC; TIGR00018 319224009490 active site 319224009491 ATP-binding site [chemical binding]; other site 319224009492 pantoate-binding site; other site 319224009493 HXXH motif; other site 319224009494 Curlin associated repeat; Region: Curlin_rpt; pfam07012 319224009495 Curlin associated repeat; Region: Curlin_rpt; pfam07012 319224009496 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 319224009497 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 319224009498 major curlin subunit; Provisional; Region: csgA; PRK10051 319224009499 Curlin associated repeat; Region: Curlin_rpt; pfam07012 319224009500 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 319224009501 Curlin associated repeat; Region: Curlin_rpt; pfam07012 319224009502 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 319224009503 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 319224009504 DNA binding residues [nucleotide binding] 319224009505 dimerization interface [polypeptide binding]; other site 319224009506 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 319224009507 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 319224009508 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 319224009509 ligand binding site [chemical binding]; other site 319224009510 NAD binding site [chemical binding]; other site 319224009511 tetramer interface [polypeptide binding]; other site 319224009512 catalytic site [active] 319224009513 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 319224009514 L-serine binding site [chemical binding]; other site 319224009515 ACT domain interface; other site 319224009516 putative global regulator; Reviewed; Region: PRK09559 319224009517 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 319224009518 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 319224009519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224009520 active site 319224009521 phosphorylation site [posttranslational modification] 319224009522 intermolecular recognition site; other site 319224009523 dimerization interface [polypeptide binding]; other site 319224009524 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224009525 Zn2+ binding site [ion binding]; other site 319224009526 Mg2+ binding site [ion binding]; other site 319224009527 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 319224009528 PAS domain; Region: PAS_9; pfam13426 319224009529 PAS domain S-box; Region: sensory_box; TIGR00229 319224009530 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 319224009531 putative active site [active] 319224009532 heme pocket [chemical binding]; other site 319224009533 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 319224009534 PAS fold; Region: PAS_3; pfam08447 319224009535 putative active site [active] 319224009536 heme pocket [chemical binding]; other site 319224009537 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 319224009538 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319224009539 putative active site [active] 319224009540 heme pocket [chemical binding]; other site 319224009541 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 319224009542 putative active site [active] 319224009543 heme pocket [chemical binding]; other site 319224009544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224009545 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 319224009546 dimer interface [polypeptide binding]; other site 319224009547 phosphorylation site [posttranslational modification] 319224009548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224009549 ATP binding site [chemical binding]; other site 319224009550 Mg2+ binding site [ion binding]; other site 319224009551 G-X-G motif; other site 319224009552 Response regulator receiver domain; Region: Response_reg; pfam00072 319224009553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224009554 active site 319224009555 phosphorylation site [posttranslational modification] 319224009556 intermolecular recognition site; other site 319224009557 dimerization interface [polypeptide binding]; other site 319224009558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224009559 Response regulator receiver domain; Region: Response_reg; pfam00072 319224009560 active site 319224009561 phosphorylation site [posttranslational modification] 319224009562 intermolecular recognition site; other site 319224009563 dimerization interface [polypeptide binding]; other site 319224009564 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 319224009565 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 319224009566 amino acid carrier protein; Region: agcS; TIGR00835 319224009567 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319224009568 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319224009569 Walker A/P-loop; other site 319224009570 ATP binding site [chemical binding]; other site 319224009571 Q-loop/lid; other site 319224009572 ABC transporter signature motif; other site 319224009573 Walker B; other site 319224009574 D-loop; other site 319224009575 H-loop/switch region; other site 319224009576 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319224009577 FtsX-like permease family; Region: FtsX; pfam02687 319224009578 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 319224009579 NapD protein; Region: NapD; pfam03927 319224009580 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 319224009581 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 319224009582 [4Fe-4S] binding site [ion binding]; other site 319224009583 molybdopterin cofactor binding site; other site 319224009584 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 319224009585 molybdopterin cofactor binding site; other site 319224009586 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 319224009587 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 319224009588 4Fe-4S binding domain; Region: Fer4_5; pfam12801 319224009589 4Fe-4S binding domain; Region: Fer4_5; pfam12801 319224009590 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 319224009591 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224009592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224009593 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 319224009594 putative dimerization interface [polypeptide binding]; other site 319224009595 elongation factor G; Reviewed; Region: PRK00007 319224009596 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 319224009597 G1 box; other site 319224009598 putative GEF interaction site [polypeptide binding]; other site 319224009599 GTP/Mg2+ binding site [chemical binding]; other site 319224009600 Switch I region; other site 319224009601 G2 box; other site 319224009602 G3 box; other site 319224009603 Switch II region; other site 319224009604 G4 box; other site 319224009605 G5 box; other site 319224009606 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 319224009607 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 319224009608 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 319224009609 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 319224009610 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 319224009611 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319224009612 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319224009613 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 319224009614 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 319224009615 carboxyltransferase (CT) interaction site; other site 319224009616 biotinylation site [posttranslational modification]; other site 319224009617 LysR family transcriptional regulator; Provisional; Region: PRK14997 319224009618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224009619 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 319224009620 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 319224009621 putative effector binding pocket; other site 319224009622 dimerization interface [polypeptide binding]; other site 319224009623 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 319224009624 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 319224009625 putative substrate binding pocket [chemical binding]; other site 319224009626 AC domain interface; other site 319224009627 catalytic triad [active] 319224009628 AB domain interface; other site 319224009629 hypothetical protein; Provisional; Region: PRK04860 319224009630 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 319224009631 DNA-specific endonuclease I; Provisional; Region: PRK15137 319224009632 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 319224009633 RNA methyltransferase, RsmE family; Region: TIGR00046 319224009634 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 319224009635 glutathione synthetase; Provisional; Region: PRK05246 319224009636 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 319224009637 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 319224009638 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 319224009639 dimer interface [polypeptide binding]; other site 319224009640 Alkaline phosphatase homologues; Region: alkPPc; smart00098 319224009641 active site 319224009642 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 319224009643 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 319224009644 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224009645 S-adenosylmethionine binding site [chemical binding]; other site 319224009646 Protein of unknown function (DUF342); Region: DUF342; pfam03961 319224009647 protein structure with unknown function; Region: DUF4144; pfam13642 319224009648 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 319224009649 Peptidase family M50; Region: Peptidase_M50; pfam02163 319224009650 active site 319224009651 putative substrate binding region [chemical binding]; other site 319224009652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224009653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224009654 metal binding site [ion binding]; metal-binding site 319224009655 active site 319224009656 I-site; other site 319224009657 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 319224009658 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 319224009659 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319224009660 Walker A/P-loop; other site 319224009661 ATP binding site [chemical binding]; other site 319224009662 Q-loop/lid; other site 319224009663 ABC transporter signature motif; other site 319224009664 Walker B; other site 319224009665 D-loop; other site 319224009666 H-loop/switch region; other site 319224009667 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319224009668 FtsX-like permease family; Region: FtsX; pfam02687 319224009669 macrolide transporter subunit MacA; Provisional; Region: PRK11578 319224009670 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224009671 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224009672 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 319224009673 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 319224009674 THF binding site; other site 319224009675 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 319224009676 substrate binding site [chemical binding]; other site 319224009677 THF binding site; other site 319224009678 zinc-binding site [ion binding]; other site 319224009679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224009680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224009681 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 319224009682 putative dimerization interface [polypeptide binding]; other site 319224009683 HDOD domain; Region: HDOD; pfam08668 319224009684 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319224009685 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 319224009686 N-terminal plug; other site 319224009687 ligand-binding site [chemical binding]; other site 319224009688 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 319224009689 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 319224009690 active site 319224009691 tetramer interface [polypeptide binding]; other site 319224009692 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319224009693 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 319224009694 substrate binding site [chemical binding]; other site 319224009695 dimer interface [polypeptide binding]; other site 319224009696 ATP binding site [chemical binding]; other site 319224009697 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 319224009698 Protein of unknown function (DUF3103); Region: DUF3103; pfam11301 319224009699 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 319224009700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319224009701 active site 319224009702 PhoD-like phosphatase; Region: PhoD; pfam09423 319224009703 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 319224009704 putative active site [active] 319224009705 putative metal binding site [ion binding]; other site 319224009706 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319224009707 FOG: CBS domain [General function prediction only]; Region: COG0517 319224009708 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 319224009709 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 319224009710 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 319224009711 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 319224009712 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 319224009713 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 319224009714 substrate binding pocket [chemical binding]; other site 319224009715 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 319224009716 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 319224009717 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224009718 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 319224009719 N-terminal plug; other site 319224009720 ligand-binding site [chemical binding]; other site 319224009721 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 319224009722 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224009723 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319224009724 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319224009725 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319224009726 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319224009727 YcaO domain protein; Region: TIGR03549 319224009728 OsmC-like protein; Region: OsmC; pfam02566 319224009729 YcaO-like family; Region: YcaO; pfam02624 319224009730 Cache domain; Region: Cache_2; pfam08269 319224009731 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 319224009732 dimerization interface [polypeptide binding]; other site 319224009733 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224009734 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224009735 dimer interface [polypeptide binding]; other site 319224009736 putative CheW interface [polypeptide binding]; other site 319224009737 Ribosome recycling factor; Region: RRF_GI; pfam12614 319224009738 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 319224009739 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 319224009740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224009741 Walker A/P-loop; other site 319224009742 ATP binding site [chemical binding]; other site 319224009743 glycine dehydrogenase; Provisional; Region: PRK05367 319224009744 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 319224009745 tetramer interface [polypeptide binding]; other site 319224009746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224009747 catalytic residue [active] 319224009748 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 319224009749 tetramer interface [polypeptide binding]; other site 319224009750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224009751 catalytic residue [active] 319224009752 glycine cleavage system protein H; Provisional; Region: PRK13380 319224009753 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 319224009754 lipoyl attachment site [posttranslational modification]; other site 319224009755 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 319224009756 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 319224009757 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 319224009758 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 319224009759 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 319224009760 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 319224009761 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 319224009762 Cell division protein ZapA; Region: ZapA; pfam05164 319224009763 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 319224009764 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 319224009765 dihydromonapterin reductase; Provisional; Region: PRK06483 319224009766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224009767 NAD(P) binding site [chemical binding]; other site 319224009768 active site 319224009769 Protein of unknown function, DUF393; Region: DUF393; pfam04134 319224009770 malate dehydrogenase; Provisional; Region: PRK05086 319224009771 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 319224009772 NAD binding site [chemical binding]; other site 319224009773 dimerization interface [polypeptide binding]; other site 319224009774 Substrate binding site [chemical binding]; other site 319224009775 arginine repressor; Provisional; Region: PRK05066 319224009776 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 319224009777 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 319224009778 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 319224009779 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319224009780 NAD binding site [chemical binding]; other site 319224009781 substrate binding site [chemical binding]; other site 319224009782 putative active site [active] 319224009783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224009784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224009785 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 319224009786 putative effector binding pocket; other site 319224009787 dimerization interface [polypeptide binding]; other site 319224009788 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 319224009789 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 319224009790 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 319224009791 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 319224009792 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 319224009793 Walker A/P-loop; other site 319224009794 ATP binding site [chemical binding]; other site 319224009795 Q-loop/lid; other site 319224009796 ABC transporter signature motif; other site 319224009797 Walker B; other site 319224009798 D-loop; other site 319224009799 H-loop/switch region; other site 319224009800 TOBE domain; Region: TOBE_2; pfam08402 319224009801 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 319224009802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224009803 dimer interface [polypeptide binding]; other site 319224009804 conserved gate region; other site 319224009805 putative PBP binding loops; other site 319224009806 ABC-ATPase subunit interface; other site 319224009807 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224009808 dimer interface [polypeptide binding]; other site 319224009809 conserved gate region; other site 319224009810 putative PBP binding loops; other site 319224009811 ABC-ATPase subunit interface; other site 319224009812 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 319224009813 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 319224009814 putative glutathione S-transferase; Provisional; Region: PRK10357 319224009815 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 319224009816 putative C-terminal domain interface [polypeptide binding]; other site 319224009817 putative GSH binding site (G-site) [chemical binding]; other site 319224009818 putative dimer interface [polypeptide binding]; other site 319224009819 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 319224009820 substrate binding pocket (H-site) [chemical binding]; other site 319224009821 N-terminal domain interface [polypeptide binding]; other site 319224009822 ferredoxin-NADP reductase; Provisional; Region: PRK10926 319224009823 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 319224009824 FAD binding pocket [chemical binding]; other site 319224009825 FAD binding motif [chemical binding]; other site 319224009826 phosphate binding motif [ion binding]; other site 319224009827 beta-alpha-beta structure motif; other site 319224009828 NAD binding pocket [chemical binding]; other site 319224009829 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 319224009830 catalytic core [active] 319224009831 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 319224009832 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 319224009833 active site 319224009834 FMN binding site [chemical binding]; other site 319224009835 substrate binding site [chemical binding]; other site 319224009836 3Fe-4S cluster binding site [ion binding]; other site 319224009837 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224009838 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 319224009839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224009840 Walker A/P-loop; other site 319224009841 ATP binding site [chemical binding]; other site 319224009842 Q-loop/lid; other site 319224009843 ABC transporter signature motif; other site 319224009844 Walker B; other site 319224009845 D-loop; other site 319224009846 H-loop/switch region; other site 319224009847 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 319224009848 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319224009849 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 319224009850 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 319224009851 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319224009852 Isochorismatase family; Region: Isochorismatase; pfam00857 319224009853 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 319224009854 catalytic triad [active] 319224009855 dimer interface [polypeptide binding]; other site 319224009856 conserved cis-peptide bond; other site 319224009857 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 319224009858 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 319224009859 heme-binding site [chemical binding]; other site 319224009860 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224009861 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224009862 metal binding site [ion binding]; metal-binding site 319224009863 active site 319224009864 I-site; other site 319224009865 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 319224009866 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 319224009867 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 319224009868 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 319224009869 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 319224009870 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 319224009871 DsbD alpha interface [polypeptide binding]; other site 319224009872 catalytic residues [active] 319224009873 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 319224009874 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 319224009875 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 319224009876 TrkA-N domain; Region: TrkA_N; pfam02254 319224009877 galactokinase; Provisional; Region: PRK05101 319224009878 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 319224009879 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 319224009880 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 319224009881 active site 319224009882 catalytic residues [active] 319224009883 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 319224009884 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 319224009885 NAD(P) binding site [chemical binding]; other site 319224009886 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319224009887 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224009888 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224009889 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224009890 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 319224009891 Leucine rich repeat; Region: LRR_8; pfam13855 319224009892 Substrate binding site [chemical binding]; other site 319224009893 Leucine rich repeat; Region: LRR_8; pfam13855 319224009894 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 319224009895 active site 319224009896 ATP binding site [chemical binding]; other site 319224009897 substrate binding site [chemical binding]; other site 319224009898 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 319224009899 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 319224009900 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319224009901 catalytic residue [active] 319224009902 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224009903 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224009904 Part of AAA domain; Region: AAA_19; pfam13245 319224009905 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 319224009906 AAA domain; Region: AAA_12; pfam13087 319224009907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224009908 Coenzyme A binding pocket [chemical binding]; other site 319224009909 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 319224009910 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319224009911 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319224009912 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224009913 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319224009914 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224009915 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 319224009916 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 319224009917 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 319224009918 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 319224009919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224009920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224009921 metal binding site [ion binding]; metal-binding site 319224009922 active site 319224009923 I-site; other site 319224009924 Response regulator receiver domain; Region: Response_reg; pfam00072 319224009925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224009926 active site 319224009927 phosphorylation site [posttranslational modification] 319224009928 intermolecular recognition site; other site 319224009929 dimerization interface [polypeptide binding]; other site 319224009930 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 319224009931 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319224009932 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 319224009933 stringent starvation protein A; Provisional; Region: sspA; PRK09481 319224009934 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 319224009935 C-terminal domain interface [polypeptide binding]; other site 319224009936 putative GSH binding site (G-site) [chemical binding]; other site 319224009937 dimer interface [polypeptide binding]; other site 319224009938 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 319224009939 dimer interface [polypeptide binding]; other site 319224009940 N-terminal domain interface [polypeptide binding]; other site 319224009941 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 319224009942 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 319224009943 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 319224009944 Qi binding site; other site 319224009945 intrachain domain interface; other site 319224009946 interchain domain interface [polypeptide binding]; other site 319224009947 heme bH binding site [chemical binding]; other site 319224009948 heme bL binding site [chemical binding]; other site 319224009949 Qo binding site; other site 319224009950 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 319224009951 interchain domain interface [polypeptide binding]; other site 319224009952 intrachain domain interface; other site 319224009953 Qi binding site; other site 319224009954 Qo binding site; other site 319224009955 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 319224009956 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 319224009957 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 319224009958 [2Fe-2S] cluster binding site [ion binding]; other site 319224009959 HflC protein; Region: hflC; TIGR01932 319224009960 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 319224009961 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 319224009962 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 319224009963 HflK protein; Region: hflK; TIGR01933 319224009964 GTPase HflX; Provisional; Region: PRK11058 319224009965 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 319224009966 HflX GTPase family; Region: HflX; cd01878 319224009967 G1 box; other site 319224009968 GTP/Mg2+ binding site [chemical binding]; other site 319224009969 Switch I region; other site 319224009970 G2 box; other site 319224009971 G3 box; other site 319224009972 Switch II region; other site 319224009973 G4 box; other site 319224009974 G5 box; other site 319224009975 bacterial Hfq-like; Region: Hfq; cd01716 319224009976 hexamer interface [polypeptide binding]; other site 319224009977 Sm1 motif; other site 319224009978 RNA binding site [nucleotide binding]; other site 319224009979 Sm2 motif; other site 319224009980 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 319224009981 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 319224009982 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 319224009983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224009984 ATP binding site [chemical binding]; other site 319224009985 Mg2+ binding site [ion binding]; other site 319224009986 G-X-G motif; other site 319224009987 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 319224009988 ATP binding site [chemical binding]; other site 319224009989 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 319224009990 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 319224009991 AMIN domain; Region: AMIN; pfam11741 319224009992 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 319224009993 active site 319224009994 metal binding site [ion binding]; metal-binding site 319224009995 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 319224009996 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319224009997 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 319224009998 putative carbohydrate kinase; Provisional; Region: PRK10565 319224009999 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 319224010000 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 319224010001 putative substrate binding site [chemical binding]; other site 319224010002 putative ATP binding site [chemical binding]; other site 319224010003 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 319224010004 dinuclear metal binding motif [ion binding]; other site 319224010005 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 319224010006 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 319224010007 catalytic site [active] 319224010008 putative active site [active] 319224010009 putative substrate binding site [chemical binding]; other site 319224010010 dimer interface [polypeptide binding]; other site 319224010011 GTPase RsgA; Reviewed; Region: PRK12288 319224010012 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 319224010013 RNA binding site [nucleotide binding]; other site 319224010014 homodimer interface [polypeptide binding]; other site 319224010015 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 319224010016 GTPase/Zn-binding domain interface [polypeptide binding]; other site 319224010017 GTP/Mg2+ binding site [chemical binding]; other site 319224010018 G4 box; other site 319224010019 G5 box; other site 319224010020 G1 box; other site 319224010021 Switch I region; other site 319224010022 G2 box; other site 319224010023 G3 box; other site 319224010024 Switch II region; other site 319224010025 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 319224010026 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 319224010027 EamA-like transporter family; Region: EamA; pfam00892 319224010028 putative mechanosensitive channel protein; Provisional; Region: PRK10929 319224010029 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 319224010030 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319224010031 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 319224010032 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 319224010033 active site 319224010034 catalytic site [active] 319224010035 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 319224010036 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 319224010037 PAS fold; Region: PAS_3; pfam08447 319224010038 putative active site [active] 319224010039 heme pocket [chemical binding]; other site 319224010040 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 319224010041 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224010042 dimer interface [polypeptide binding]; other site 319224010043 putative CheW interface [polypeptide binding]; other site 319224010044 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 319224010045 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 319224010046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224010047 S-adenosylmethionine binding site [chemical binding]; other site 319224010048 dihydroorotase; Provisional; Region: PRK01211 319224010049 Protein kinase domain; Region: Pkinase; pfam00069 319224010050 Catalytic domain of Protein Kinases; Region: PKc; cd00180 319224010051 active site 319224010052 ATP binding site [chemical binding]; other site 319224010053 substrate binding site [chemical binding]; other site 319224010054 activation loop (A-loop); other site 319224010055 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 319224010056 active site 319224010057 Cache domain; Region: Cache_1; pfam02743 319224010058 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 319224010059 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319224010060 putative active site [active] 319224010061 heme pocket [chemical binding]; other site 319224010062 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 319224010063 putative active site [active] 319224010064 heme pocket [chemical binding]; other site 319224010065 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 319224010066 dimer interface [polypeptide binding]; other site 319224010067 phosphorylation site [posttranslational modification] 319224010068 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224010069 ATP binding site [chemical binding]; other site 319224010070 Mg2+ binding site [ion binding]; other site 319224010071 G-X-G motif; other site 319224010072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010073 Response regulator receiver domain; Region: Response_reg; pfam00072 319224010074 active site 319224010075 phosphorylation site [posttranslational modification] 319224010076 intermolecular recognition site; other site 319224010077 dimerization interface [polypeptide binding]; other site 319224010078 Response regulator receiver domain; Region: Response_reg; pfam00072 319224010079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010080 active site 319224010081 phosphorylation site [posttranslational modification] 319224010082 intermolecular recognition site; other site 319224010083 dimerization interface [polypeptide binding]; other site 319224010084 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 319224010085 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 319224010086 putative active site [active] 319224010087 PhoH-like protein; Region: PhoH; pfam02562 319224010088 ATP-dependent helicase HepA; Validated; Region: PRK04914 319224010089 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 319224010090 ATP binding site [chemical binding]; other site 319224010091 putative Mg++ binding site [ion binding]; other site 319224010092 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 319224010093 nucleotide binding region [chemical binding]; other site 319224010094 ATP-binding site [chemical binding]; other site 319224010095 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 319224010096 enoyl-CoA hydratase; Provisional; Region: PRK07509 319224010097 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 319224010098 substrate binding site [chemical binding]; other site 319224010099 oxyanion hole (OAH) forming residues; other site 319224010100 trimer interface [polypeptide binding]; other site 319224010101 Response regulator receiver domain; Region: Response_reg; pfam00072 319224010102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010103 active site 319224010104 phosphorylation site [posttranslational modification] 319224010105 intermolecular recognition site; other site 319224010106 dimerization interface [polypeptide binding]; other site 319224010107 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 319224010108 PAS domain; Region: PAS_9; pfam13426 319224010109 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010110 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010111 metal binding site [ion binding]; metal-binding site 319224010112 active site 319224010113 I-site; other site 319224010114 RNase E inhibitor protein; Provisional; Region: PRK11191 319224010115 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 319224010116 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 319224010117 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319224010118 putative acyl-acceptor binding pocket; other site 319224010119 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 319224010120 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 319224010121 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 319224010122 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 319224010123 putative ligand binding site [chemical binding]; other site 319224010124 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 319224010125 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 319224010126 Potassium binding sites [ion binding]; other site 319224010127 Cesium cation binding sites [ion binding]; other site 319224010128 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 319224010129 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 319224010130 active site 2 [active] 319224010131 active site 1 [active] 319224010132 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 319224010133 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224010134 S-adenosylmethionine binding site [chemical binding]; other site 319224010135 TraB family; Region: TraB; pfam01963 319224010136 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 319224010137 FOG: CBS domain [General function prediction only]; Region: COG0517 319224010138 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 319224010139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010141 metal binding site [ion binding]; metal-binding site 319224010142 active site 319224010143 I-site; other site 319224010144 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 319224010145 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 319224010146 Response regulator receiver domain; Region: Response_reg; pfam00072 319224010147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010148 active site 319224010149 phosphorylation site [posttranslational modification] 319224010150 intermolecular recognition site; other site 319224010151 dimerization interface [polypeptide binding]; other site 319224010152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010153 Response regulator receiver domain; Region: Response_reg; pfam00072 319224010154 active site 319224010155 phosphorylation site [posttranslational modification] 319224010156 intermolecular recognition site; other site 319224010157 dimerization interface [polypeptide binding]; other site 319224010158 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 319224010159 IHF dimer interface [polypeptide binding]; other site 319224010160 IHF - DNA interface [nucleotide binding]; other site 319224010161 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 319224010162 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 319224010163 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319224010164 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319224010165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010166 active site 319224010167 phosphorylation site [posttranslational modification] 319224010168 intermolecular recognition site; other site 319224010169 dimerization interface [polypeptide binding]; other site 319224010170 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010171 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010172 metal binding site [ion binding]; metal-binding site 319224010173 active site 319224010174 I-site; other site 319224010175 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 319224010176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224010177 Response regulator receiver domain; Region: Response_reg; pfam00072 319224010178 active site 319224010179 phosphorylation site [posttranslational modification] 319224010180 intermolecular recognition site; other site 319224010181 CHASE domain; Region: CHASE; pfam03924 319224010182 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 319224010183 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 319224010184 putative active site [active] 319224010185 heme pocket [chemical binding]; other site 319224010186 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 319224010187 dimer interface [polypeptide binding]; other site 319224010188 phosphorylation site [posttranslational modification] 319224010189 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224010190 ATP binding site [chemical binding]; other site 319224010191 Mg2+ binding site [ion binding]; other site 319224010192 G-X-G motif; other site 319224010193 conserved hypothetical protein; Region: QEGLA; TIGR02421 319224010194 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 319224010195 amino acid carrier protein; Region: agcS; TIGR00835 319224010196 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 319224010197 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 319224010198 Beta-Casp domain; Region: Beta-Casp; smart01027 319224010199 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 319224010200 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 319224010201 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 319224010202 Uncharacterized conserved protein [Function unknown]; Region: COG1359 319224010203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224010204 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 319224010205 Coenzyme A binding pocket [chemical binding]; other site 319224010206 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 319224010207 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 319224010208 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 319224010209 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 319224010210 Protein export membrane protein; Region: SecD_SecF; cl14618 319224010211 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224010212 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 319224010213 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224010214 Outer membrane efflux protein; Region: OEP; pfam02321 319224010215 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 319224010216 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 319224010217 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 319224010218 hypothetical protein; Provisional; Region: PRK09256 319224010219 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 319224010220 Dehydroquinase class II; Region: DHquinase_II; pfam01220 319224010221 active site 319224010222 trimer interface [polypeptide binding]; other site 319224010223 dimer interface [polypeptide binding]; other site 319224010224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319224010225 NAD(P) binding site [chemical binding]; other site 319224010226 active site 319224010227 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 319224010228 FMN reductase; Validated; Region: fre; PRK08051 319224010229 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 319224010230 FAD binding pocket [chemical binding]; other site 319224010231 FAD binding motif [chemical binding]; other site 319224010232 phosphate binding motif [ion binding]; other site 319224010233 beta-alpha-beta structure motif; other site 319224010234 NAD binding pocket [chemical binding]; other site 319224010235 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 319224010236 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224010237 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 319224010238 DNA binding site [nucleotide binding] 319224010239 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 319224010240 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319224010241 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 319224010242 Walker A/P-loop; other site 319224010243 ATP binding site [chemical binding]; other site 319224010244 Q-loop/lid; other site 319224010245 ABC transporter signature motif; other site 319224010246 Walker B; other site 319224010247 D-loop; other site 319224010248 H-loop/switch region; other site 319224010249 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 319224010250 NosL; Region: NosL; pfam05573 319224010251 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 319224010252 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 319224010253 TPR motif; other site 319224010254 binding surface 319224010255 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 319224010256 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 319224010257 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224010258 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 319224010259 active site residue [active] 319224010260 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 319224010261 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319224010262 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 319224010263 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 319224010264 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224010265 catalytic residues [active] 319224010266 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 319224010267 metal binding site [ion binding]; metal-binding site 319224010268 Pathogenicity locus; Region: Cdd1; pfam11731 319224010269 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 319224010270 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 319224010271 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 319224010272 FMN binding site [chemical binding]; other site 319224010273 substrate binding site [chemical binding]; other site 319224010274 putative catalytic residue [active] 319224010275 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 319224010276 UbiA prenyltransferase family; Region: UbiA; pfam01040 319224010277 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 319224010278 Part of AAA domain; Region: AAA_19; pfam13245 319224010279 Family description; Region: UvrD_C_2; pfam13538 319224010280 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319224010281 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 319224010282 ATP binding site [chemical binding]; other site 319224010283 putative Mg++ binding site [ion binding]; other site 319224010284 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 319224010285 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 319224010286 nucleotide binding region [chemical binding]; other site 319224010287 ATP-binding site [chemical binding]; other site 319224010288 Methyltransferase domain; Region: Methyltransf_31; pfam13847 319224010289 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224010290 S-adenosylmethionine binding site [chemical binding]; other site 319224010291 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_21; cd04680 319224010292 nudix motif; other site 319224010293 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 319224010294 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 319224010295 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 319224010296 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 319224010297 substrate binding pocket [chemical binding]; other site 319224010298 membrane-bound complex binding site; other site 319224010299 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 319224010300 DctM-like transporters; Region: DctM; pfam06808 319224010301 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 319224010302 Transcriptional regulators [Transcription]; Region: FadR; COG2186 319224010303 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224010304 DNA-binding site [nucleotide binding]; DNA binding site 319224010305 FCD domain; Region: FCD; pfam07729 319224010306 outer membrane porin, OprD family; Region: OprD; pfam03573 319224010307 Tannase and feruloyl esterase; Region: Tannase; pfam07519 319224010308 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 319224010309 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 319224010310 chaperone protein DnaJ; Provisional; Region: PRK14298 319224010311 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 319224010312 putative active site [active] 319224010313 PAS fold; Region: PAS_3; pfam08447 319224010314 heme pocket [chemical binding]; other site 319224010315 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010317 metal binding site [ion binding]; metal-binding site 319224010318 active site 319224010319 I-site; other site 319224010320 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319224010321 thioredoxin 2; Provisional; Region: PRK10996 319224010322 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 319224010323 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 319224010324 catalytic residues [active] 319224010325 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 319224010326 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 319224010327 transmembrane helices; other site 319224010328 putative MFS family transporter protein; Provisional; Region: PRK03633 319224010329 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 319224010330 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 319224010331 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 319224010332 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 319224010333 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 319224010334 Predicted permease; Region: DUF318; cl17795 319224010335 Predicted permease; Region: DUF318; cl17795 319224010336 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 319224010337 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 319224010338 DNA binding residues [nucleotide binding] 319224010339 dimer interface [polypeptide binding]; other site 319224010340 metal binding site [ion binding]; metal-binding site 319224010341 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 319224010342 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 319224010343 purine monophosphate binding site [chemical binding]; other site 319224010344 dimer interface [polypeptide binding]; other site 319224010345 putative catalytic residues [active] 319224010346 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 319224010347 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 319224010348 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 319224010349 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 319224010350 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 319224010351 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 319224010352 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 319224010353 short chain dehydrogenase; Provisional; Region: PRK06181 319224010354 NADP binding site [chemical binding]; other site 319224010355 homodimer interface [polypeptide binding]; other site 319224010356 substrate binding site [chemical binding]; other site 319224010357 active site 319224010358 PAS fold; Region: PAS_4; pfam08448 319224010359 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 319224010360 putative active site [active] 319224010361 heme pocket [chemical binding]; other site 319224010362 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010364 metal binding site [ion binding]; metal-binding site 319224010365 active site 319224010366 I-site; other site 319224010367 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 319224010368 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 319224010369 substrate binding site [chemical binding]; other site 319224010370 active site 319224010371 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 319224010372 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 319224010373 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 319224010374 substrate binding site [chemical binding]; other site 319224010375 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 319224010376 substrate binding site [chemical binding]; other site 319224010377 ligand binding site [chemical binding]; other site 319224010378 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 319224010379 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 319224010380 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 319224010381 motif II; other site 319224010382 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 319224010383 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 319224010384 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 319224010385 active site 319224010386 Zn binding site [ion binding]; other site 319224010387 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 319224010388 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 319224010389 active site 319224010390 nucleophile elbow; other site 319224010391 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319224010392 Surface antigen; Region: Bac_surface_Ag; pfam01103 319224010393 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 319224010394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319224010395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319224010396 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319224010397 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 319224010398 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 319224010399 E3 interaction surface; other site 319224010400 lipoyl attachment site [posttranslational modification]; other site 319224010401 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 319224010402 E3 interaction surface; other site 319224010403 lipoyl attachment site [posttranslational modification]; other site 319224010404 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 319224010405 E3 interaction surface; other site 319224010406 lipoyl attachment site [posttranslational modification]; other site 319224010407 e3 binding domain; Region: E3_binding; pfam02817 319224010408 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 319224010409 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 319224010410 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 319224010411 dimer interface [polypeptide binding]; other site 319224010412 TPP-binding site [chemical binding]; other site 319224010413 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 319224010414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224010415 DNA-binding site [nucleotide binding]; DNA binding site 319224010416 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 319224010417 regulatory protein AmpE; Provisional; Region: PRK10987 319224010418 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 319224010419 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 319224010420 amidase catalytic site [active] 319224010421 Zn binding residues [ion binding]; other site 319224010422 substrate binding site [chemical binding]; other site 319224010423 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 319224010424 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 319224010425 dimerization interface [polypeptide binding]; other site 319224010426 active site 319224010427 Pilin (bacterial filament); Region: Pilin; pfam00114 319224010428 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 319224010429 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 319224010430 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 319224010431 Walker A motif; other site 319224010432 ATP binding site [chemical binding]; other site 319224010433 Walker B motif; other site 319224010434 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 319224010435 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319224010436 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319224010437 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 319224010438 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 319224010439 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 319224010440 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 319224010441 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 319224010442 CoA-binding site [chemical binding]; other site 319224010443 ATP-binding [chemical binding]; other site 319224010444 hypothetical protein; Provisional; Region: PRK05287 319224010445 Domain of unknown function (DUF329); Region: DUF329; pfam03884 319224010446 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 319224010447 active site 319224010448 8-oxo-dGMP binding site [chemical binding]; other site 319224010449 nudix motif; other site 319224010450 metal binding site [ion binding]; metal-binding site 319224010451 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 319224010452 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224010453 catalytic residues [active] 319224010454 exopolyphosphatase; Region: exo_poly_only; TIGR03706 319224010455 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 319224010456 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 319224010457 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 319224010458 ATP binding site [chemical binding]; other site 319224010459 Mg++ binding site [ion binding]; other site 319224010460 motif III; other site 319224010461 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 319224010462 nucleotide binding region [chemical binding]; other site 319224010463 ATP-binding site [chemical binding]; other site 319224010464 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 319224010465 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224010466 catalytic residues [active] 319224010467 transcription termination factor Rho; Provisional; Region: rho; PRK09376 319224010468 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 319224010469 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 319224010470 RNA binding site [nucleotide binding]; other site 319224010471 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 319224010472 multimer interface [polypeptide binding]; other site 319224010473 Walker A motif; other site 319224010474 ATP binding site [chemical binding]; other site 319224010475 Walker B motif; other site 319224010476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224010477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224010478 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 319224010479 putative effector binding pocket; other site 319224010480 dimerization interface [polypeptide binding]; other site 319224010481 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 319224010482 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 319224010483 putative NAD(P) binding site [chemical binding]; other site 319224010484 dimer interface [polypeptide binding]; other site 319224010485 Uncharacterized conserved protein [Function unknown]; Region: COG1359 319224010486 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 319224010487 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 319224010488 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 319224010489 L-aspartate oxidase; Provisional; Region: PRK06175 319224010490 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319224010491 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 319224010492 Iron-sulfur protein interface; other site 319224010493 proximal heme binding site [chemical binding]; other site 319224010494 distal heme binding site [chemical binding]; other site 319224010495 dimer interface [polypeptide binding]; other site 319224010496 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 319224010497 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 319224010498 Iron-sulfur protein interface; other site 319224010499 proximal heme binding site [chemical binding]; other site 319224010500 distal heme binding site [chemical binding]; other site 319224010501 dimer interface [polypeptide binding]; other site 319224010502 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 319224010503 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224010504 S-adenosylmethionine binding site [chemical binding]; other site 319224010505 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 319224010506 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 319224010507 FMN binding site [chemical binding]; other site 319224010508 active site 319224010509 catalytic residues [active] 319224010510 substrate binding site [chemical binding]; other site 319224010511 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 319224010512 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 319224010513 PilZ domain; Region: PilZ; pfam07238 319224010514 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 319224010515 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 319224010516 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 319224010517 ligand binding site [chemical binding]; other site 319224010518 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 319224010519 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 319224010520 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 319224010521 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319224010522 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 319224010523 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 319224010524 DNA binding residues [nucleotide binding] 319224010525 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 319224010526 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 319224010527 Flagellar protein FliS; Region: FliS; cl00654 319224010528 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 319224010529 flagellar capping protein; Reviewed; Region: fliD; PRK08032 319224010530 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 319224010531 flagellin; Provisional; Region: PRK12802 319224010532 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 319224010533 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 319224010534 flagellin; Provisional; Region: PRK12802 319224010535 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 319224010536 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 319224010537 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 319224010538 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 319224010539 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 319224010540 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224010541 peptidoglycan hydrolase; Reviewed; Region: flgJ; PRK12708 319224010542 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 319224010543 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 319224010544 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 319224010545 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 319224010546 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 319224010547 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 319224010548 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224010549 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 319224010550 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 319224010551 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 319224010552 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 319224010553 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 319224010554 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 319224010555 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224010556 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 319224010557 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 319224010558 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 319224010559 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 319224010560 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 319224010561 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 319224010562 SAF-like; Region: SAF_2; pfam13144 319224010563 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 319224010564 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 319224010565 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 319224010566 FlgN protein; Region: FlgN; pfam05130 319224010567 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319224010568 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 319224010569 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 319224010570 Walker A motif; other site 319224010571 ATP binding site [chemical binding]; other site 319224010572 Walker B motif; other site 319224010573 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 319224010574 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 319224010575 Flagellar assembly protein FliH; Region: FliH; pfam02108 319224010576 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 319224010577 FliG C-terminal domain; Region: FliG_C; pfam01706 319224010578 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 319224010579 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 319224010580 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 319224010581 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 319224010582 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319224010583 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 319224010584 Walker A motif; other site 319224010585 ATP binding site [chemical binding]; other site 319224010586 Walker B motif; other site 319224010587 arginine finger; other site 319224010588 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224010589 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 319224010590 flagellar motor switch protein FliN; Region: fliN; TIGR02480 319224010591 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 319224010592 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 319224010593 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 319224010594 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 319224010595 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 319224010596 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 319224010597 FHIPEP family; Region: FHIPEP; pfam00771 319224010598 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 319224010599 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 319224010600 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 319224010601 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 319224010602 Nucleoside recognition; Region: Gate; pfam07670 319224010603 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 319224010604 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 319224010605 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 319224010606 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 319224010607 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 319224010608 ligand binding site [chemical binding]; other site 319224010609 flexible hinge region; other site 319224010610 Helix-turn-helix domain; Region: HTH_36; pfam13730 319224010611 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319224010612 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319224010613 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224010614 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319224010615 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319224010616 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319224010617 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 319224010618 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319224010619 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319224010620 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 319224010621 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 319224010622 EamA-like transporter family; Region: EamA; cl17759 319224010623 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 319224010624 EamA-like transporter family; Region: EamA; pfam00892 319224010625 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 319224010626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224010627 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 319224010628 substrate binding pocket [chemical binding]; other site 319224010629 dimerization interface [polypeptide binding]; other site 319224010630 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 319224010631 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 319224010632 active site 319224010633 nucleophile elbow; other site 319224010634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224010635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224010636 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 319224010637 putative effector binding pocket; other site 319224010638 dimerization interface [polypeptide binding]; other site 319224010639 enterobactin receptor protein; Provisional; Region: PRK13483 319224010640 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 319224010641 N-terminal plug; other site 319224010642 ligand-binding site [chemical binding]; other site 319224010643 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 319224010644 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 319224010645 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 319224010646 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 319224010647 FeS/SAM binding site; other site 319224010648 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 319224010649 Sodium Bile acid symporter family; Region: SBF; pfam01758 319224010650 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 319224010651 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 319224010652 glutamate racemase; Provisional; Region: PRK00865 319224010653 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 319224010654 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224010655 S-adenosylmethionine binding site [chemical binding]; other site 319224010656 Transposase, Mutator family; Region: Transposase_mut; pfam00872 319224010657 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 319224010658 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 319224010659 Predicted transcriptional regulator [Transcription]; Region: COG3905 319224010660 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 319224010661 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 319224010662 active site 319224010663 DNA binding site [nucleotide binding] 319224010664 Int/Topo IB signature motif; other site 319224010665 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 319224010666 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 319224010667 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 319224010668 MPN+ (JAMM) motif; other site 319224010669 Zinc-binding site [ion binding]; other site 319224010670 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 319224010671 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 319224010672 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 319224010673 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 319224010674 ATP binding site [chemical binding]; other site 319224010675 putative Mg++ binding site [ion binding]; other site 319224010676 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 319224010677 Methyltransferase domain; Region: Methyltransf_26; pfam13659 319224010678 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 319224010679 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224010680 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 319224010681 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224010682 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 319224010683 ADP-ribose binding site [chemical binding]; other site 319224010684 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 319224010685 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 319224010686 NADP binding site [chemical binding]; other site 319224010687 dimer interface [polypeptide binding]; other site 319224010688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224010689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224010690 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224010691 LysR substrate binding domain; Region: LysR_substrate; pfam03466 319224010692 dimerization interface [polypeptide binding]; other site 319224010693 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 319224010694 heme-binding residues [chemical binding]; other site 319224010695 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 319224010696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319224010697 Predicted oxidoreductase [General function prediction only]; Region: COG3573 319224010698 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 319224010699 non-specific DNA binding site [nucleotide binding]; other site 319224010700 salt bridge; other site 319224010701 sequence-specific DNA binding site [nucleotide binding]; other site 319224010702 integrase; Provisional; Region: PRK09692 319224010703 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 319224010704 active site 319224010705 DNA binding site [nucleotide binding] 319224010706 Int/Topo IB signature motif; other site 319224010707 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 319224010708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224010709 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 319224010710 Fatty acid desaturase; Region: FA_desaturase; pfam00487 319224010711 Di-iron ligands [ion binding]; other site 319224010712 selenophosphate synthetase; Provisional; Region: PRK00943 319224010713 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 319224010714 dimerization interface [polypeptide binding]; other site 319224010715 putative ATP binding site [chemical binding]; other site 319224010716 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 319224010717 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 319224010718 active site residue [active] 319224010719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224010720 putative substrate translocation pore; other site 319224010721 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319224010722 putative acyl-acceptor binding pocket; other site 319224010723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224010724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224010725 WHG domain; Region: WHG; pfam13305 319224010726 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 319224010727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224010728 Coenzyme A binding pocket [chemical binding]; other site 319224010729 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 319224010730 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 319224010731 active site 319224010732 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 319224010733 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 319224010734 dimer interface [polypeptide binding]; other site 319224010735 ADP-ribose binding site [chemical binding]; other site 319224010736 active site 319224010737 nudix motif; other site 319224010738 metal binding site [ion binding]; metal-binding site 319224010739 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 319224010740 Interdomain contacts; other site 319224010741 Cytokine receptor motif; other site 319224010742 Cadherin repeat-like domain; Region: CA_like; cl15786 319224010743 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 319224010744 Ca2+ binding site [ion binding]; other site 319224010745 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 319224010746 Cadherin repeat-like domain; Region: CA_like; cl15786 319224010747 Ca2+ binding site [ion binding]; other site 319224010748 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 319224010749 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 319224010750 Phage Tail Collar Domain; Region: Collar; pfam07484 319224010751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224010752 Coenzyme A binding pocket [chemical binding]; other site 319224010753 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 319224010754 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 319224010755 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 319224010756 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 319224010757 motif II; other site 319224010758 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 319224010759 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 319224010760 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 319224010761 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 319224010762 GspL periplasmic domain; Region: GspL_C; pfam12693 319224010763 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 319224010764 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 319224010765 type II secretion system protein J; Region: gspJ; TIGR01711 319224010766 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 319224010767 type II secretion system protein I; Region: gspI; TIGR01707 319224010768 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 319224010769 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 319224010770 Type II transport protein GspH; Region: GspH; pfam12019 319224010771 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 319224010772 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 319224010773 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 319224010774 type II secretion system protein F; Region: GspF; TIGR02120 319224010775 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319224010776 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319224010777 type II secretion system protein E; Region: type_II_gspE; TIGR02533 319224010778 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 319224010779 Walker A motif; other site 319224010780 ATP binding site [chemical binding]; other site 319224010781 Walker B motif; other site 319224010782 type II secretion system protein D; Region: type_II_gspD; TIGR02517 319224010783 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 319224010784 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 319224010785 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 319224010786 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319224010787 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 319224010788 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 319224010789 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 319224010790 RNA binding surface [nucleotide binding]; other site 319224010791 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 319224010792 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 319224010793 dimerization interface [polypeptide binding]; other site 319224010794 domain crossover interface; other site 319224010795 redox-dependent activation switch; other site 319224010796 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 319224010797 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 319224010798 active site 319224010799 substrate-binding site [chemical binding]; other site 319224010800 metal-binding site [ion binding] 319224010801 ATP binding site [chemical binding]; other site 319224010802 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 319224010803 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 319224010804 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 319224010805 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 319224010806 Hemerythrin-like domain; Region: Hr-like; cd12108 319224010807 Divergent AAA domain; Region: AAA_4; pfam04326 319224010808 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 319224010809 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 319224010810 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 319224010811 motif II; other site 319224010812 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 319224010813 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 319224010814 active site 319224010815 Int/Topo IB signature motif; other site 319224010816 Protein of unknown function, DUF484; Region: DUF484; cl17449 319224010817 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 319224010818 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 319224010819 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 319224010820 diaminopimelate decarboxylase; Region: lysA; TIGR01048 319224010821 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 319224010822 active site 319224010823 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319224010824 substrate binding site [chemical binding]; other site 319224010825 catalytic residues [active] 319224010826 dimer interface [polypeptide binding]; other site 319224010827 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 319224010828 putative iron binding site [ion binding]; other site 319224010829 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 319224010830 adenylate cyclase; Provisional; Region: cyaA; PRK09450 319224010831 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 319224010832 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 319224010833 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 319224010834 domain interfaces; other site 319224010835 active site 319224010836 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 319224010837 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 319224010838 active site 319224010839 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 319224010840 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 319224010841 HemY protein N-terminus; Region: HemY_N; pfam07219 319224010842 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 319224010843 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 319224010844 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 319224010845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319224010846 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 319224010847 Walker A/P-loop; other site 319224010848 ATP binding site [chemical binding]; other site 319224010849 Q-loop/lid; other site 319224010850 ABC transporter signature motif; other site 319224010851 Walker B; other site 319224010852 D-loop; other site 319224010853 H-loop/switch region; other site 319224010854 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 319224010855 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319224010856 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224010857 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319224010858 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319224010859 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319224010860 ligand binding site [chemical binding]; other site 319224010861 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 319224010862 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 319224010863 dimerization interface [polypeptide binding]; other site 319224010864 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010865 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010866 metal binding site [ion binding]; metal-binding site 319224010867 active site 319224010868 I-site; other site 319224010869 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 319224010870 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224010871 GAF domain; Region: GAF; pfam01590 319224010872 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319224010873 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 319224010874 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224010875 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224010876 metal binding site [ion binding]; metal-binding site 319224010877 active site 319224010878 I-site; other site 319224010879 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 319224010880 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 319224010881 Part of AAA domain; Region: AAA_19; pfam13245 319224010882 Family description; Region: UvrD_C_2; pfam13538 319224010883 Membrane fusogenic activity; Region: BMFP; pfam04380 319224010884 NnrS protein; Region: NnrS; pfam05940 319224010885 Cytochrome c552; Region: Cytochrom_C552; pfam02335 319224010886 inner membrane protein; Provisional; Region: PRK11715 319224010887 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 319224010888 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 319224010889 active site 319224010890 Tim44-like domain; Region: Tim44; pfam04280 319224010891 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 319224010892 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 319224010893 homodimer interface [polypeptide binding]; other site 319224010894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224010895 catalytic residue [active] 319224010896 threonine dehydratase; Reviewed; Region: PRK09224 319224010897 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 319224010898 tetramer interface [polypeptide binding]; other site 319224010899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224010900 catalytic residue [active] 319224010901 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 319224010902 putative Ile/Val binding site [chemical binding]; other site 319224010903 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 319224010904 putative Ile/Val binding site [chemical binding]; other site 319224010905 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 319224010906 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 319224010907 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 319224010908 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 319224010909 PYR/PP interface [polypeptide binding]; other site 319224010910 dimer interface [polypeptide binding]; other site 319224010911 TPP binding site [chemical binding]; other site 319224010912 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 319224010913 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 319224010914 TPP-binding site [chemical binding]; other site 319224010915 dimer interface [polypeptide binding]; other site 319224010916 ketol-acid reductoisomerase; Validated; Region: PRK05225 319224010917 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 319224010918 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 319224010919 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 319224010920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224010921 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 319224010922 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 319224010923 putative dimerization interface [polypeptide binding]; other site 319224010924 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 319224010925 Domain of unknown function DUF21; Region: DUF21; pfam01595 319224010926 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 319224010927 Transporter associated domain; Region: CorC_HlyC; smart01091 319224010928 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 319224010929 ERCC4 domain; Region: ERCC4; smart00891 319224010930 dUMP phosphatase; Provisional; Region: PRK09449 319224010931 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 319224010932 motif II; other site 319224010933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 319224010934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224010935 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 319224010936 putative effector binding pocket; other site 319224010937 dimerization interface [polypeptide binding]; other site 319224010938 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 319224010939 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319224010940 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 319224010941 non-specific DNA binding site [nucleotide binding]; other site 319224010942 salt bridge; other site 319224010943 sequence-specific DNA binding site [nucleotide binding]; other site 319224010944 Fic family protein [Function unknown]; Region: COG3177 319224010945 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 319224010946 Fic/DOC family; Region: Fic; pfam02661 319224010947 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 319224010948 putative DNA binding site [nucleotide binding]; other site 319224010949 putative Zn2+ binding site [ion binding]; other site 319224010950 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 319224010951 Phosphotransferase enzyme family; Region: APH; pfam01636 319224010952 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 319224010953 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 319224010954 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 319224010955 active site 319224010956 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 319224010957 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 319224010958 catalytic site [active] 319224010959 G-X2-G-X-G-K; other site 319224010960 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 319224010961 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 319224010962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224010963 Zn2+ binding site [ion binding]; other site 319224010964 Mg2+ binding site [ion binding]; other site 319224010965 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 319224010966 synthetase active site [active] 319224010967 NTP binding site [chemical binding]; other site 319224010968 metal binding site [ion binding]; metal-binding site 319224010969 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 319224010970 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 319224010971 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 319224010972 homotrimer interaction site [polypeptide binding]; other site 319224010973 putative active site [active] 319224010974 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 319224010975 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 319224010976 acyl-activating enzyme (AAE) consensus motif; other site 319224010977 putative AMP binding site [chemical binding]; other site 319224010978 putative active site [active] 319224010979 putative CoA binding site [chemical binding]; other site 319224010980 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 319224010981 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319224010982 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319224010983 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 319224010984 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 319224010985 N-terminal plug; other site 319224010986 ligand-binding site [chemical binding]; other site 319224010987 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 319224010988 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 319224010989 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 319224010990 E-class dimer interface [polypeptide binding]; other site 319224010991 P-class dimer interface [polypeptide binding]; other site 319224010992 active site 319224010993 Cu2+ binding site [ion binding]; other site 319224010994 Zn2+ binding site [ion binding]; other site 319224010995 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 319224010996 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 319224010997 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 319224010998 Walker A motif; other site 319224010999 ATP binding site [chemical binding]; other site 319224011000 Walker B motif; other site 319224011001 arginine finger; other site 319224011002 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 319224011003 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319224011004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 319224011005 putative acyl-acceptor binding pocket; other site 319224011006 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319224011007 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 319224011008 putative acyl-acceptor binding pocket; other site 319224011009 Uncharacterized conserved protein [Function unknown]; Region: COG1683 319224011010 Transcriptional regulators [Transcription]; Region: GntR; COG1802 319224011011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 319224011012 DNA-binding site [nucleotide binding]; DNA binding site 319224011013 FCD domain; Region: FCD; pfam07729 319224011014 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 319224011015 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 319224011016 tetramer interface [polypeptide binding]; other site 319224011017 active site 319224011018 Mg2+/Mn2+ binding site [ion binding]; other site 319224011019 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 319224011020 dimer interface [polypeptide binding]; other site 319224011021 Citrate synthase; Region: Citrate_synt; pfam00285 319224011022 active site 319224011023 citrylCoA binding site [chemical binding]; other site 319224011024 oxalacetate/citrate binding site [chemical binding]; other site 319224011025 coenzyme A binding site [chemical binding]; other site 319224011026 catalytic triad [active] 319224011027 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 319224011028 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 319224011029 substrate binding site [chemical binding]; other site 319224011030 ligand binding site [chemical binding]; other site 319224011031 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 319224011032 substrate binding site [chemical binding]; other site 319224011033 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 319224011034 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 319224011035 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 319224011036 PAS fold; Region: PAS_3; pfam08447 319224011037 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 319224011038 PAS domain; Region: PAS_9; pfam13426 319224011039 putative active site [active] 319224011040 heme pocket [chemical binding]; other site 319224011041 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224011042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224011043 metal binding site [ion binding]; metal-binding site 319224011044 active site 319224011045 I-site; other site 319224011046 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 319224011047 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 319224011048 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 319224011049 homodimer interface [polypeptide binding]; other site 319224011050 substrate-cofactor binding pocket; other site 319224011051 catalytic residue [active] 319224011052 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 319224011053 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 319224011054 homotrimer interaction site [polypeptide binding]; other site 319224011055 putative active site [active] 319224011056 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 319224011057 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 319224011058 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 319224011059 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 319224011060 catalytic residues [active] 319224011061 hinge region; other site 319224011062 alpha helical domain; other site 319224011063 serine/threonine protein kinase; Provisional; Region: PRK11768 319224011064 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 319224011065 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 319224011066 Uncharacterized conserved protein [Function unknown]; Region: COG0397 319224011067 hypothetical protein; Validated; Region: PRK00029 319224011068 ribonuclease E; Reviewed; Region: rne; PRK10811 319224011069 DsrE/DsrF-like family; Region: DrsE; cl00672 319224011070 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 319224011071 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 319224011072 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 319224011073 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 319224011074 putative ligand binding residues [chemical binding]; other site 319224011075 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 319224011076 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 319224011077 Walker A/P-loop; other site 319224011078 ATP binding site [chemical binding]; other site 319224011079 Q-loop/lid; other site 319224011080 ABC transporter signature motif; other site 319224011081 Walker B; other site 319224011082 D-loop; other site 319224011083 H-loop/switch region; other site 319224011084 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 319224011085 ABC-ATPase subunit interface; other site 319224011086 dimer interface [polypeptide binding]; other site 319224011087 putative PBP binding regions; other site 319224011088 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 319224011089 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 319224011090 ABC-ATPase subunit interface; other site 319224011091 dimer interface [polypeptide binding]; other site 319224011092 putative PBP binding regions; other site 319224011093 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 319224011094 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 319224011095 N-terminal plug; other site 319224011096 ligand-binding site [chemical binding]; other site 319224011097 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 319224011098 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 319224011099 Walker A/P-loop; other site 319224011100 ATP binding site [chemical binding]; other site 319224011101 Q-loop/lid; other site 319224011102 ABC transporter signature motif; other site 319224011103 Walker B; other site 319224011104 D-loop; other site 319224011105 H-loop/switch region; other site 319224011106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224011107 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 319224011108 Walker A/P-loop; other site 319224011109 ATP binding site [chemical binding]; other site 319224011110 Q-loop/lid; other site 319224011111 ABC transporter signature motif; other site 319224011112 Walker B; other site 319224011113 D-loop; other site 319224011114 H-loop/switch region; other site 319224011115 Acyltransferase family; Region: Acyl_transf_3; pfam01757 319224011116 Uncharacterized conserved protein [Function unknown]; Region: COG3339 319224011117 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 319224011118 ornithine decarboxylase; Provisional; Region: PRK13578 319224011119 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 319224011120 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 319224011121 homodimer interface [polypeptide binding]; other site 319224011122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224011123 catalytic residue [active] 319224011124 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 319224011125 putrescine transporter; Provisional; Region: potE; PRK10655 319224011126 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 319224011127 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 319224011128 trimer interface [polypeptide binding]; other site 319224011129 eyelet of channel; other site 319224011130 hypothetical protein; Provisional; Region: PRK01254 319224011131 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 319224011132 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 319224011133 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 319224011134 MAPEG family; Region: MAPEG; cl09190 319224011135 Uncharacterized conserved protein [Function unknown]; Region: COG2966 319224011136 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 319224011137 Uncharacterized conserved protein [Function unknown]; Region: COG3610 319224011138 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 319224011139 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 319224011140 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 319224011141 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 319224011142 conserved cys residue [active] 319224011143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224011144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224011145 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 319224011146 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 319224011147 putative SAM binding site [chemical binding]; other site 319224011148 putative homodimer interface [polypeptide binding]; other site 319224011149 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 319224011150 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 319224011151 putative ligand binding site [chemical binding]; other site 319224011152 hypothetical protein; Reviewed; Region: PRK12497 319224011153 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 319224011154 dimer interface [polypeptide binding]; other site 319224011155 active site 319224011156 BON domain; Region: BON; pfam04972 319224011157 BON domain; Region: BON; pfam04972 319224011158 EamA-like transporter family; Region: EamA; pfam00892 319224011159 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 319224011160 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 319224011161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 319224011162 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 319224011163 dimerization interface [polypeptide binding]; other site 319224011164 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 319224011165 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 319224011166 active site 319224011167 HIGH motif; other site 319224011168 dimer interface [polypeptide binding]; other site 319224011169 KMSKS motif; other site 319224011170 phosphoglycolate phosphatase; Provisional; Region: PRK13222 319224011171 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 319224011172 motif II; other site 319224011173 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 319224011174 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 319224011175 substrate binding site [chemical binding]; other site 319224011176 hexamer interface [polypeptide binding]; other site 319224011177 metal binding site [ion binding]; metal-binding site 319224011178 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 319224011179 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 319224011180 AAA ATPase domain; Region: AAA_16; pfam13191 319224011181 AAA domain; Region: AAA_22; pfam13401 319224011182 Walker A motif; other site 319224011183 ATP binding site [chemical binding]; other site 319224011184 Walker B motif; other site 319224011185 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 319224011186 active site 319224011187 dimer interface [polypeptide binding]; other site 319224011188 metal binding site [ion binding]; metal-binding site 319224011189 shikimate kinase; Reviewed; Region: aroK; PRK00131 319224011190 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 319224011191 ADP binding site [chemical binding]; other site 319224011192 magnesium binding site [ion binding]; other site 319224011193 putative shikimate binding site; other site 319224011194 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 319224011195 Secretin and TonB N terminus short domain; Region: STN; smart00965 319224011196 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 319224011197 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319224011198 Pilus assembly protein, PilP; Region: PilP; pfam04351 319224011199 Pilus assembly protein, PilO; Region: PilO; pfam04350 319224011200 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 319224011201 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 319224011202 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 319224011203 Competence protein A; Region: Competence_A; pfam11104 319224011204 nucleotide binding site [chemical binding]; other site 319224011205 Cell division protein FtsA; Region: FtsA; pfam14450 319224011206 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 319224011207 Transglycosylase; Region: Transgly; pfam00912 319224011208 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 319224011209 argininosuccinate lyase; Provisional; Region: PRK04833 319224011210 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 319224011211 active sites [active] 319224011212 tetramer interface [polypeptide binding]; other site 319224011213 argininosuccinate synthase; Provisional; Region: PRK13820 319224011214 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 319224011215 ANP binding site [chemical binding]; other site 319224011216 Substrate Binding Site II [chemical binding]; other site 319224011217 Substrate Binding Site I [chemical binding]; other site 319224011218 ornithine carbamoyltransferase; Provisional; Region: PRK14805 319224011219 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 319224011220 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 319224011221 acetylglutamate kinase; Provisional; Region: PRK00942 319224011222 nucleotide binding site [chemical binding]; other site 319224011223 substrate binding site [chemical binding]; other site 319224011224 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 319224011225 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 319224011226 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 319224011227 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 319224011228 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 319224011229 competence damage-inducible protein A; Provisional; Region: PRK00549 319224011230 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 319224011231 putative MPT binding site; other site 319224011232 Competence-damaged protein; Region: CinA; pfam02464 319224011233 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 319224011234 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319224011235 catalytic residues [active] 319224011236 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 319224011237 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 319224011238 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 319224011239 catalytic residues [active] 319224011240 central insert; other site 319224011241 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319224011242 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 319224011243 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 319224011244 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 319224011245 binding surface 319224011246 TPR motif; other site 319224011247 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 319224011248 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 319224011249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224011250 Walker A/P-loop; other site 319224011251 ATP binding site [chemical binding]; other site 319224011252 Q-loop/lid; other site 319224011253 ABC transporter signature motif; other site 319224011254 Walker B; other site 319224011255 D-loop; other site 319224011256 H-loop/switch region; other site 319224011257 heme exporter protein CcmB; Region: ccmB; TIGR01190 319224011258 heme exporter protein CcmC; Region: ccmC; TIGR01191 319224011259 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 319224011260 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 319224011261 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 319224011262 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 319224011263 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 319224011264 alphaNTD homodimer interface [polypeptide binding]; other site 319224011265 alphaNTD - beta interaction site [polypeptide binding]; other site 319224011266 alphaNTD - beta' interaction site [polypeptide binding]; other site 319224011267 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 319224011268 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 319224011269 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 319224011270 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 319224011271 RNA binding surface [nucleotide binding]; other site 319224011272 30S ribosomal protein S11; Validated; Region: PRK05309 319224011273 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 319224011274 30S ribosomal protein S13; Region: bact_S13; TIGR03631 319224011275 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 319224011276 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 319224011277 SecY translocase; Region: SecY; pfam00344 319224011278 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 319224011279 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 319224011280 23S rRNA binding site [nucleotide binding]; other site 319224011281 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 319224011282 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 319224011283 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 319224011284 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 319224011285 5S rRNA interface [nucleotide binding]; other site 319224011286 23S rRNA interface [nucleotide binding]; other site 319224011287 L5 interface [polypeptide binding]; other site 319224011288 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 319224011289 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 319224011290 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 319224011291 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 319224011292 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 319224011293 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 319224011294 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 319224011295 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 319224011296 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 319224011297 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 319224011298 RNA binding site [nucleotide binding]; other site 319224011299 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 319224011300 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 319224011301 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 319224011302 23S rRNA interface [nucleotide binding]; other site 319224011303 putative translocon interaction site; other site 319224011304 signal recognition particle (SRP54) interaction site; other site 319224011305 L23 interface [polypeptide binding]; other site 319224011306 trigger factor interaction site; other site 319224011307 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 319224011308 23S rRNA interface [nucleotide binding]; other site 319224011309 5S rRNA interface [nucleotide binding]; other site 319224011310 putative antibiotic binding site [chemical binding]; other site 319224011311 L25 interface [polypeptide binding]; other site 319224011312 L27 interface [polypeptide binding]; other site 319224011313 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 319224011314 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 319224011315 G-X-X-G motif; other site 319224011316 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 319224011317 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 319224011318 putative translocon binding site; other site 319224011319 protein-rRNA interface [nucleotide binding]; other site 319224011320 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 319224011321 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 319224011322 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 319224011323 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 319224011324 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 319224011325 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 319224011326 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 319224011327 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 319224011328 elongation factor Tu; Reviewed; Region: PRK00049 319224011329 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 319224011330 G1 box; other site 319224011331 GEF interaction site [polypeptide binding]; other site 319224011332 GTP/Mg2+ binding site [chemical binding]; other site 319224011333 Switch I region; other site 319224011334 G2 box; other site 319224011335 G3 box; other site 319224011336 Switch II region; other site 319224011337 G4 box; other site 319224011338 G5 box; other site 319224011339 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 319224011340 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 319224011341 Antibiotic Binding Site [chemical binding]; other site 319224011342 elongation factor G; Reviewed; Region: PRK00007 319224011343 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 319224011344 G1 box; other site 319224011345 putative GEF interaction site [polypeptide binding]; other site 319224011346 GTP/Mg2+ binding site [chemical binding]; other site 319224011347 Switch I region; other site 319224011348 G2 box; other site 319224011349 G3 box; other site 319224011350 Switch II region; other site 319224011351 G4 box; other site 319224011352 G5 box; other site 319224011353 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 319224011354 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 319224011355 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 319224011356 30S ribosomal protein S7; Validated; Region: PRK05302 319224011357 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 319224011358 S17 interaction site [polypeptide binding]; other site 319224011359 S8 interaction site; other site 319224011360 16S rRNA interaction site [nucleotide binding]; other site 319224011361 streptomycin interaction site [chemical binding]; other site 319224011362 23S rRNA interaction site [nucleotide binding]; other site 319224011363 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 319224011364 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 319224011365 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 319224011366 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 319224011367 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 319224011368 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 319224011369 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 319224011370 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 319224011371 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 319224011372 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 319224011373 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 319224011374 DNA binding site [nucleotide binding] 319224011375 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 319224011376 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 319224011377 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 319224011378 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 319224011379 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 319224011380 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 319224011381 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 319224011382 RPB3 interaction site [polypeptide binding]; other site 319224011383 RPB1 interaction site [polypeptide binding]; other site 319224011384 RPB11 interaction site [polypeptide binding]; other site 319224011385 RPB10 interaction site [polypeptide binding]; other site 319224011386 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 319224011387 core dimer interface [polypeptide binding]; other site 319224011388 peripheral dimer interface [polypeptide binding]; other site 319224011389 L10 interface [polypeptide binding]; other site 319224011390 L11 interface [polypeptide binding]; other site 319224011391 putative EF-Tu interaction site [polypeptide binding]; other site 319224011392 putative EF-G interaction site [polypeptide binding]; other site 319224011393 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 319224011394 23S rRNA interface [nucleotide binding]; other site 319224011395 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 319224011396 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 319224011397 mRNA/rRNA interface [nucleotide binding]; other site 319224011398 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 319224011399 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 319224011400 23S rRNA interface [nucleotide binding]; other site 319224011401 L7/L12 interface [polypeptide binding]; other site 319224011402 putative thiostrepton binding site; other site 319224011403 L25 interface [polypeptide binding]; other site 319224011404 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 319224011405 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 319224011406 putative homodimer interface [polypeptide binding]; other site 319224011407 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 319224011408 heterodimer interface [polypeptide binding]; other site 319224011409 homodimer interface [polypeptide binding]; other site 319224011410 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 319224011411 elongation factor Tu; Reviewed; Region: PRK00049 319224011412 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 319224011413 G1 box; other site 319224011414 GEF interaction site [polypeptide binding]; other site 319224011415 GTP/Mg2+ binding site [chemical binding]; other site 319224011416 Switch I region; other site 319224011417 G2 box; other site 319224011418 G3 box; other site 319224011419 Switch II region; other site 319224011420 G4 box; other site 319224011421 G5 box; other site 319224011422 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 319224011423 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 319224011424 Antibiotic Binding Site [chemical binding]; other site 319224011425 pantothenate kinase; Provisional; Region: PRK05439 319224011426 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 319224011427 ATP-binding site [chemical binding]; other site 319224011428 CoA-binding site [chemical binding]; other site 319224011429 Mg2+-binding site [ion binding]; other site 319224011430 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 319224011431 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 319224011432 dimerization interface [polypeptide binding]; other site 319224011433 putative Zn2+ binding site [ion binding]; other site 319224011434 putative DNA binding site [nucleotide binding]; other site 319224011435 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 319224011436 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 319224011437 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 319224011438 FAD binding domain; Region: FAD_binding_4; pfam01565 319224011439 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 319224011440 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 319224011441 B1 nucleotide binding pocket [chemical binding]; other site 319224011442 B2 nucleotide binding pocket [chemical binding]; other site 319224011443 CAS motifs; other site 319224011444 active site 319224011445 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 319224011446 aromatic amino acid transport protein; Region: araaP; TIGR00837 319224011447 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 319224011448 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 319224011449 putative acyl-acceptor binding pocket; other site 319224011450 LexA repressor; Validated; Region: PRK00215 319224011451 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 319224011452 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 319224011453 Catalytic site [active] 319224011454 Cell division inhibitor SulA; Region: SulA; cl01880 319224011455 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 319224011456 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 319224011457 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 319224011458 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 319224011459 Cytochrome c; Region: Cytochrom_C; pfam00034 319224011460 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 319224011461 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 319224011462 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 319224011463 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 319224011464 Subunit I/III interface [polypeptide binding]; other site 319224011465 D-pathway; other site 319224011466 Subunit I/VIIc interface [polypeptide binding]; other site 319224011467 Subunit I/IV interface [polypeptide binding]; other site 319224011468 Subunit I/II interface [polypeptide binding]; other site 319224011469 Low-spin heme (heme a) binding site [chemical binding]; other site 319224011470 Subunit I/VIIa interface [polypeptide binding]; other site 319224011471 Subunit I/VIa interface [polypeptide binding]; other site 319224011472 Dimer interface; other site 319224011473 Putative water exit pathway; other site 319224011474 Binuclear center (heme a3/CuB) [ion binding]; other site 319224011475 K-pathway; other site 319224011476 Subunit I/Vb interface [polypeptide binding]; other site 319224011477 Putative proton exit pathway; other site 319224011478 Subunit I/VIb interface; other site 319224011479 Subunit I/VIc interface [polypeptide binding]; other site 319224011480 Electron transfer pathway; other site 319224011481 Subunit I/VIIIb interface [polypeptide binding]; other site 319224011482 Subunit I/VIIb interface [polypeptide binding]; other site 319224011483 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 319224011484 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 319224011485 Subunit III/VIIa interface [polypeptide binding]; other site 319224011486 Phospholipid binding site [chemical binding]; other site 319224011487 Subunit I/III interface [polypeptide binding]; other site 319224011488 Subunit III/VIb interface [polypeptide binding]; other site 319224011489 Subunit III/VIa interface; other site 319224011490 Subunit III/Vb interface [polypeptide binding]; other site 319224011491 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 319224011492 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 319224011493 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 319224011494 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 319224011495 UbiA prenyltransferase family; Region: UbiA; pfam01040 319224011496 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 319224011497 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 319224011498 Cu(I) binding site [ion binding]; other site 319224011499 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 319224011500 putative active site [active] 319224011501 putative metal binding site [ion binding]; other site 319224011502 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 319224011503 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 319224011504 RES domain; Region: RES; smart00953 319224011505 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 319224011506 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 319224011507 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 319224011508 FMN-binding domain; Region: FMN_bind; pfam04205 319224011509 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 319224011510 L-aspartate oxidase; Provisional; Region: PRK06175 319224011511 Predicted oxidoreductase [General function prediction only]; Region: COG3573 319224011512 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 319224011513 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224011514 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 319224011515 dimer interface [polypeptide binding]; other site 319224011516 phosphorylation site [posttranslational modification] 319224011517 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224011518 ATP binding site [chemical binding]; other site 319224011519 Mg2+ binding site [ion binding]; other site 319224011520 G-X-G motif; other site 319224011521 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224011522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224011523 active site 319224011524 phosphorylation site [posttranslational modification] 319224011525 intermolecular recognition site; other site 319224011526 dimerization interface [polypeptide binding]; other site 319224011527 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 319224011528 DNA binding site [nucleotide binding] 319224011529 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 319224011530 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 319224011531 dimerization interface [polypeptide binding]; other site 319224011532 DNA binding residues [nucleotide binding] 319224011533 DNA utilization protein GntX; Provisional; Region: PRK11595 319224011534 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 319224011535 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 319224011536 Sulfatase; Region: Sulfatase; pfam00884 319224011537 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 319224011538 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 319224011539 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 319224011540 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 319224011541 RNA binding site [nucleotide binding]; other site 319224011542 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319224011543 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 319224011544 DNA binding site [nucleotide binding] 319224011545 active site 319224011546 Int/Topo IB signature motif; other site 319224011547 catalytic residues [active] 319224011548 Putative phage integrase; Region: Phage_Integr_2; pfam13009 319224011549 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 319224011550 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 319224011551 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319224011552 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 319224011553 DNA binding site [nucleotide binding] 319224011554 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 319224011555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 319224011556 Homeodomain-like domain; Region: HTH_23; pfam13384 319224011557 Winged helix-turn helix; Region: HTH_33; pfam13592 319224011558 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319224011559 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 319224011560 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 319224011561 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 319224011562 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 319224011563 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 319224011564 Predicted permeases [General function prediction only]; Region: COG0701 319224011565 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319224011566 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 319224011567 active site 319224011568 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 319224011569 dimerization interface [polypeptide binding]; other site 319224011570 putative DNA binding site [nucleotide binding]; other site 319224011571 putative Zn2+ binding site [ion binding]; other site 319224011572 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 319224011573 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319224011574 active site 319224011575 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 319224011576 dimerization interface [polypeptide binding]; other site 319224011577 putative DNA binding site [nucleotide binding]; other site 319224011578 putative Zn2+ binding site [ion binding]; other site 319224011579 Predicted permease; Region: DUF318; cl17795 319224011580 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 319224011581 glutathione (GSH) binding pocket [chemical binding]; other site 319224011582 active site residues [active] 319224011583 ATP binding pocket [chemical binding]; other site 319224011584 magnesium binding site [ion binding]; other site 319224011585 glycine rich loop; other site 319224011586 alanine rich loop; other site 319224011587 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 319224011588 4Fe-4S binding domain; Region: Fer4; pfam00037 319224011589 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 319224011590 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 319224011591 putative [Fe4-S4] binding site [ion binding]; other site 319224011592 putative molybdopterin cofactor binding site [chemical binding]; other site 319224011593 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 319224011594 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 319224011595 putative molybdopterin cofactor binding site; other site 319224011596 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 319224011597 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 319224011598 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319224011599 P loop; other site 319224011600 Nucleotide binding site [chemical binding]; other site 319224011601 DTAP/Switch II; other site 319224011602 Switch I; other site 319224011603 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319224011604 P loop; other site 319224011605 Nucleotide binding site [chemical binding]; other site 319224011606 DTAP/Switch II; other site 319224011607 Switch I; other site 319224011608 arsenical pump membrane protein; Provisional; Region: PRK15445 319224011609 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 319224011610 transmembrane helices; other site 319224011611 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 319224011612 ArsC family; Region: ArsC; pfam03960 319224011613 catalytic residues [active] 319224011614 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319224011615 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319224011616 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224011617 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 319224011618 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 319224011619 dimerization interface [polypeptide binding]; other site 319224011620 putative DNA binding site [nucleotide binding]; other site 319224011621 putative Zn2+ binding site [ion binding]; other site 319224011622 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 319224011623 non-specific DNA binding site [nucleotide binding]; other site 319224011624 salt bridge; other site 319224011625 sequence-specific DNA binding site [nucleotide binding]; other site 319224011626 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 319224011627 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 319224011628 ATP binding site [chemical binding]; other site 319224011629 putative Mg++ binding site [ion binding]; other site 319224011630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224011631 Walker A/P-loop; other site 319224011632 ATP binding site [chemical binding]; other site 319224011633 putative transposase OrfB; Reviewed; Region: PHA02517 319224011634 HTH-like domain; Region: HTH_21; pfam13276 319224011635 Integrase core domain; Region: rve; pfam00665 319224011636 Integrase core domain; Region: rve_3; pfam13683 319224011637 Transposase; Region: HTH_Tnp_1; cl17663 319224011638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 319224011639 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319224011640 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 319224011641 ATP binding site [chemical binding]; other site 319224011642 putative Mg++ binding site [ion binding]; other site 319224011643 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 319224011644 nucleotide binding region [chemical binding]; other site 319224011645 ATP-binding site [chemical binding]; other site 319224011646 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 319224011647 osmolarity response regulator; Provisional; Region: ompR; PRK09468 319224011648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224011649 active site 319224011650 phosphorylation site [posttranslational modification] 319224011651 intermolecular recognition site; other site 319224011652 dimerization interface [polypeptide binding]; other site 319224011653 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 319224011654 DNA binding site [nucleotide binding] 319224011655 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 319224011656 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 319224011657 dimerization interface [polypeptide binding]; other site 319224011658 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 319224011659 dimer interface [polypeptide binding]; other site 319224011660 phosphorylation site [posttranslational modification] 319224011661 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224011662 ATP binding site [chemical binding]; other site 319224011663 Mg2+ binding site [ion binding]; other site 319224011664 G-X-G motif; other site 319224011665 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 319224011666 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 319224011667 dimerization interface [polypeptide binding]; other site 319224011668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 319224011669 dimer interface [polypeptide binding]; other site 319224011670 putative CheW interface [polypeptide binding]; other site 319224011671 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 319224011672 catalytic triad [active] 319224011673 dimer interface [polypeptide binding]; other site 319224011674 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 319224011675 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224011676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224011677 active site 319224011678 phosphorylation site [posttranslational modification] 319224011679 intermolecular recognition site; other site 319224011680 dimerization interface [polypeptide binding]; other site 319224011681 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 319224011682 DNA binding site [nucleotide binding] 319224011683 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 319224011684 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224011685 ATP binding site [chemical binding]; other site 319224011686 Mg2+ binding site [ion binding]; other site 319224011687 G-X-G motif; other site 319224011688 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 319224011689 MASE1; Region: MASE1; cl17823 319224011690 CHASE domain; Region: CHASE; pfam03924 319224011691 PAS domain S-box; Region: sensory_box; TIGR00229 319224011692 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 319224011693 putative active site [active] 319224011694 heme pocket [chemical binding]; other site 319224011695 PAS domain S-box; Region: sensory_box; TIGR00229 319224011696 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 319224011697 putative active site [active] 319224011698 heme pocket [chemical binding]; other site 319224011699 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319224011700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224011701 metal binding site [ion binding]; metal-binding site 319224011702 active site 319224011703 I-site; other site 319224011704 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 319224011705 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 319224011706 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 319224011707 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 319224011708 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 319224011709 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 319224011710 D-pathway; other site 319224011711 Putative ubiquinol binding site [chemical binding]; other site 319224011712 Low-spin heme (heme b) binding site [chemical binding]; other site 319224011713 Putative water exit pathway; other site 319224011714 Binuclear center (heme o3/CuB) [ion binding]; other site 319224011715 K-pathway; other site 319224011716 Putative proton exit pathway; other site 319224011717 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 319224011718 Subunit I/III interface [polypeptide binding]; other site 319224011719 Subunit III/IV interface [polypeptide binding]; other site 319224011720 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 319224011721 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 319224011722 UbiA prenyltransferase family; Region: UbiA; pfam01040 319224011723 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 319224011724 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 319224011725 N-terminal plug; other site 319224011726 ligand-binding site [chemical binding]; other site 319224011727 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 319224011728 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 319224011729 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 319224011730 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319224011731 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 319224011732 non-specific DNA binding site [nucleotide binding]; other site 319224011733 salt bridge; other site 319224011734 sequence-specific DNA binding site [nucleotide binding]; other site 319224011735 Domain of unknown function (DUF955); Region: DUF955; cl01076 319224011736 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 319224011737 malate synthase; Provisional; Region: PRK08951 319224011738 Predicted membrane protein [Function unknown]; Region: COG2855 319224011739 Paraquat-inducible protein A; Region: PqiA; pfam04403 319224011740 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 319224011741 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 319224011742 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319224011743 Zn2+ binding site [ion binding]; other site 319224011744 Mg2+ binding site [ion binding]; other site 319224011745 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 319224011746 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 319224011747 Walker A/P-loop; other site 319224011748 ATP binding site [chemical binding]; other site 319224011749 Q-loop/lid; other site 319224011750 ABC transporter signature motif; other site 319224011751 Walker B; other site 319224011752 D-loop; other site 319224011753 H-loop/switch region; other site 319224011754 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 319224011755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319224011756 Walker A/P-loop; other site 319224011757 ATP binding site [chemical binding]; other site 319224011758 Q-loop/lid; other site 319224011759 ABC transporter signature motif; other site 319224011760 Walker B; other site 319224011761 D-loop; other site 319224011762 H-loop/switch region; other site 319224011763 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 319224011764 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319224011765 hypothetical protein; Provisional; Region: PRK11212 319224011766 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319224011767 Coenzyme A binding pocket [chemical binding]; other site 319224011768 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224011769 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 319224011770 dimer interface [polypeptide binding]; other site 319224011771 phosphorylation site [posttranslational modification] 319224011772 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224011773 ATP binding site [chemical binding]; other site 319224011774 Mg2+ binding site [ion binding]; other site 319224011775 G-X-G motif; other site 319224011776 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319224011777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224011778 active site 319224011779 phosphorylation site [posttranslational modification] 319224011780 intermolecular recognition site; other site 319224011781 dimerization interface [polypeptide binding]; other site 319224011782 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 319224011783 Walker A motif; other site 319224011784 ATP binding site [chemical binding]; other site 319224011785 Walker B motif; other site 319224011786 arginine finger; other site 319224011787 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319224011788 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 319224011789 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319224011790 dimerization interface [polypeptide binding]; other site 319224011791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 319224011792 dimer interface [polypeptide binding]; other site 319224011793 conserved gate region; other site 319224011794 putative PBP binding loops; other site 319224011795 ABC-ATPase subunit interface; other site 319224011796 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 319224011797 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 319224011798 Walker A/P-loop; other site 319224011799 ATP binding site [chemical binding]; other site 319224011800 Q-loop/lid; other site 319224011801 ABC transporter signature motif; other site 319224011802 Walker B; other site 319224011803 D-loop; other site 319224011804 H-loop/switch region; other site 319224011805 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 319224011806 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 319224011807 GTP binding site; other site 319224011808 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 319224011809 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 319224011810 Walker A motif; other site 319224011811 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 319224011812 dimer interface [polypeptide binding]; other site 319224011813 putative functional site; other site 319224011814 putative MPT binding site; other site 319224011815 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 319224011816 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 319224011817 FeS/SAM binding site; other site 319224011818 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 319224011819 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 319224011820 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 319224011821 DNA binding site [nucleotide binding] 319224011822 catalytic residue [active] 319224011823 H2TH interface [polypeptide binding]; other site 319224011824 putative catalytic residues [active] 319224011825 turnover-facilitating residue; other site 319224011826 intercalation triad [nucleotide binding]; other site 319224011827 8OG recognition residue [nucleotide binding]; other site 319224011828 putative reading head residues; other site 319224011829 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 319224011830 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 319224011831 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 319224011832 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 319224011833 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 319224011834 active site 319224011835 (T/H)XGH motif; other site 319224011836 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 319224011837 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 319224011838 Sulfatase; Region: Sulfatase; cl17466 319224011839 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 319224011840 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 319224011841 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 319224011842 NADP binding site [chemical binding]; other site 319224011843 active site 319224011844 putative substrate binding site [chemical binding]; other site 319224011845 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319224011846 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 319224011847 putative metal binding site; other site 319224011848 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 319224011849 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 319224011850 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319224011851 UDP-galactopyranose mutase; Region: GLF; pfam03275 319224011852 Protein of unknown function (DUF707); Region: DUF707; pfam05212 319224011853 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 319224011854 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319224011855 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 319224011856 putative active site [active] 319224011857 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 319224011858 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 319224011859 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 319224011860 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 319224011861 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 319224011862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319224011863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319224011864 Bacterial transcriptional repressor; Region: TetR; pfam13972 319224011865 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 319224011866 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 319224011867 substrate-cofactor binding pocket; other site 319224011868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319224011869 catalytic residue [active] 319224011870 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 319224011871 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 319224011872 NAD(P) binding site [chemical binding]; other site 319224011873 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 319224011874 active site residue [active] 319224011875 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 319224011876 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 319224011877 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 319224011878 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 319224011879 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 319224011880 conserved cys residue [active] 319224011881 DNA polymerase I; Provisional; Region: PRK05755 319224011882 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 319224011883 active site 319224011884 metal binding site 1 [ion binding]; metal-binding site 319224011885 putative 5' ssDNA interaction site; other site 319224011886 metal binding site 3; metal-binding site 319224011887 metal binding site 2 [ion binding]; metal-binding site 319224011888 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 319224011889 putative DNA binding site [nucleotide binding]; other site 319224011890 putative metal binding site [ion binding]; other site 319224011891 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 319224011892 active site 319224011893 catalytic site [active] 319224011894 substrate binding site [chemical binding]; other site 319224011895 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 319224011896 active site 319224011897 DNA binding site [nucleotide binding] 319224011898 catalytic site [active] 319224011899 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 319224011900 G1 box; other site 319224011901 GTP/Mg2+ binding site [chemical binding]; other site 319224011902 Switch I region; other site 319224011903 G2 box; other site 319224011904 G3 box; other site 319224011905 Switch II region; other site 319224011906 G4 box; other site 319224011907 G5 box; other site 319224011908 Cytochrome c553 [Energy production and conversion]; Region: COG2863 319224011909 Cytochrome c; Region: Cytochrom_C; cl11414 319224011910 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319224011911 Der GTPase activator (YihI); Region: YihI; pfam04220 319224011912 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 319224011913 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 319224011914 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 319224011915 FeS/SAM binding site; other site 319224011916 HemN C-terminal domain; Region: HemN_C; pfam06969 319224011917 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 319224011918 adenosine deaminase; Provisional; Region: PRK09358 319224011919 active site 319224011920 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 319224011921 lysophospholipase L2; Provisional; Region: PRK10749 319224011922 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 319224011923 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 319224011924 PAS fold; Region: PAS_3; pfam08447 319224011925 putative active site [active] 319224011926 heme pocket [chemical binding]; other site 319224011927 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319224011928 metal binding site [ion binding]; metal-binding site 319224011929 active site 319224011930 I-site; other site 319224011931 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 319224011932 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 319224011933 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 319224011934 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 319224011935 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 319224011936 substrate binding site [chemical binding]; other site 319224011937 oxyanion hole (OAH) forming residues; other site 319224011938 trimer interface [polypeptide binding]; other site 319224011939 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 319224011940 AAA domain; Region: AAA_30; pfam13604 319224011941 AAA domain; Region: AAA_11; pfam13086 319224011942 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 319224011943 AAA domain; Region: AAA_12; pfam13087 319224011944 Transposase; Region: HTH_Tnp_1; cl17663 319224011945 putative transposase OrfB; Reviewed; Region: PHA02517 319224011946 HTH-like domain; Region: HTH_21; pfam13276 319224011947 Integrase core domain; Region: rve; pfam00665 319224011948 Integrase core domain; Region: rve_3; pfam13683 319224011949 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224011950 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 319224011951 non-specific DNA binding site [nucleotide binding]; other site 319224011952 salt bridge; other site 319224011953 sequence-specific DNA binding site [nucleotide binding]; other site 319224011954 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 319224011955 putative DNA binding site [nucleotide binding]; other site 319224011956 putative Zn2+ binding site [ion binding]; other site 319224011957 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 319224011958 ATP-binding site [chemical binding]; other site 319224011959 AAA domain; Region: AAA_22; pfam13401 319224011960 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 319224011961 Walker A motif; other site 319224011962 ATP binding site [chemical binding]; other site 319224011963 Walker B motif; other site 319224011964 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 319224011965 Integrase core domain; Region: rve; pfam00665 319224011966 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 319224011967 DNA methylase; Region: N6_N4_Mtase; cl17433 319224011968 DNA methylase; Region: N6_N4_Mtase; cl17433 319224011969 Winged helix-turn helix; Region: HTH_29; pfam13551 319224011970 Helix-turn-helix domain; Region: HTH_28; pfam13518 319224011971 Integrase core domain; Region: rve; pfam00665 319224011972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 319224011973 Integrase core domain; Region: rve_3; pfam13683 319224011974 Domain of unknown function DUF87; Region: DUF87; pfam01935 319224011975 HerA helicase [Replication, recombination, and repair]; Region: COG0433 319224011976 TniQ; Region: TniQ; pfam06527 319224011977 AAA ATPase domain; Region: AAA_16; pfam13191 319224011978 AAA domain; Region: AAA_22; pfam13401 319224011979 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 319224011980 Integrase core domain; Region: rve; pfam00665 319224011981 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 319224011982 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 319224011983 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 319224011984 Abi-like protein; Region: Abi_2; pfam07751 319224011985 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 319224011986 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 319224011987 glutaminase active site [active] 319224011988 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 319224011989 dimer interface [polypeptide binding]; other site 319224011990 active site 319224011991 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 319224011992 dimer interface [polypeptide binding]; other site 319224011993 active site 319224011994 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 319224011995 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 319224011996 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 319224011997 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319224011998 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 319224011999 N-terminal plug; other site 319224012000 ligand-binding site [chemical binding]; other site 319224012001 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 319224012002 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 319224012003 Substrate binding site; other site 319224012004 Mg++ binding site; other site 319224012005 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 319224012006 active site 319224012007 substrate binding site [chemical binding]; other site 319224012008 CoA binding site [chemical binding]; other site 319224012009 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 319224012010 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 319224012011 gamma subunit interface [polypeptide binding]; other site 319224012012 epsilon subunit interface [polypeptide binding]; other site 319224012013 LBP interface [polypeptide binding]; other site 319224012014 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 319224012015 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319224012016 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 319224012017 alpha subunit interaction interface [polypeptide binding]; other site 319224012018 Walker A motif; other site 319224012019 ATP binding site [chemical binding]; other site 319224012020 Walker B motif; other site 319224012021 inhibitor binding site; inhibition site 319224012022 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319224012023 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 319224012024 core domain interface [polypeptide binding]; other site 319224012025 delta subunit interface [polypeptide binding]; other site 319224012026 epsilon subunit interface [polypeptide binding]; other site 319224012027 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 319224012028 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319224012029 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 319224012030 beta subunit interaction interface [polypeptide binding]; other site 319224012031 Walker A motif; other site 319224012032 ATP binding site [chemical binding]; other site 319224012033 Walker B motif; other site 319224012034 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319224012035 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 319224012036 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 319224012037 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 319224012038 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 319224012039 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 319224012040 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 319224012041 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 319224012042 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 319224012043 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 319224012044 ParB-like nuclease domain; Region: ParBc; pfam02195 319224012045 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 319224012046 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 319224012047 P-loop; other site 319224012048 Magnesium ion binding site [ion binding]; other site 319224012049 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 319224012050 Magnesium ion binding site [ion binding]; other site 319224012051 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 319224012052 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 319224012053 S-adenosylmethionine binding site [chemical binding]; other site 319224012054 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 319224012055 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 319224012056 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 319224012057 FMN-binding protein MioC; Provisional; Region: PRK09004 319224012058 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 319224012059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 319224012060 POT family; Region: PTR2; cl17359 319224012061 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 319224012062 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224012063 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319224012064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 319224012065 active site 319224012066 phosphorylation site [posttranslational modification] 319224012067 intermolecular recognition site; other site 319224012068 dimerization interface [polypeptide binding]; other site 319224012069 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 319224012070 DNA binding site [nucleotide binding] 319224012071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319224012072 HAMP domain; Region: HAMP; pfam00672 319224012073 dimerization interface [polypeptide binding]; other site 319224012074 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 319224012075 dimer interface [polypeptide binding]; other site 319224012076 phosphorylation site [posttranslational modification] 319224012077 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 319224012078 ATP binding site [chemical binding]; other site 319224012079 Mg2+ binding site [ion binding]; other site 319224012080 G-X-G motif; other site 319224012081 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 319224012082 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 319224012083 catalytic residues [active] 319224012084 catalytic nucleophile [active] 319224012085 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 319224012086 non-specific DNA binding site [nucleotide binding]; other site 319224012087 salt bridge; other site 319224012088 sequence-specific DNA binding site [nucleotide binding]; other site 319224012089 HsdM N-terminal domain; Region: HsdM_N; pfam12161 319224012090 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 319224012091 Methyltransferase domain; Region: Methyltransf_26; pfam13659 319224012092 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 319224012093 Divergent AAA domain; Region: AAA_4; pfam04326 319224012094 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 319224012095 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 319224012096 HsdM N-terminal domain; Region: HsdM_N; pfam12161 319224012097 Methyltransferase domain; Region: Methyltransf_26; pfam13659 319224012098 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 319224012099 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 319224012100 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 319224012101 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 319224012102 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 319224012103 ATP binding site [chemical binding]; other site 319224012104 putative Mg++ binding site [ion binding]; other site 319224012105 AAA domain; Region: AAA_13; pfam13166 319224012106 Virulence protein [General function prediction only]; Region: COG3943 319224012107 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 319224012108 Domain of unknown function (DUF927); Region: DUF927; pfam06048 319224012109 Helix-turn-helix domain; Region: HTH_17; pfam12728 319224012110 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 319224012111 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 319224012112 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 319224012113 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 319224012114 E3 interaction surface; other site 319224012115 lipoyl attachment site [posttranslational modification]; other site 319224012116 HlyD family secretion protein; Region: HlyD_3; pfam13437 319224012117 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319224012118 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 319224012119 Penicillinase repressor; Region: Pencillinase_R; cl17580 319224012120 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 319224012121 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 319224012122 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 319224012123 Int/Topo IB signature motif; other site 319224012124 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 319224012125 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 319224012126 trmE is a tRNA modification GTPase; Region: trmE; cd04164 319224012127 G1 box; other site 319224012128 GTP/Mg2+ binding site [chemical binding]; other site 319224012129 Switch I region; other site 319224012130 G2 box; other site 319224012131 Switch II region; other site 319224012132 G3 box; other site 319224012133 G4 box; other site 319224012134 G5 box; other site 319224012135 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 319224012136 membrane protein insertase; Provisional; Region: PRK01318 319224012137 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 319224012138 Haemolytic domain; Region: Haemolytic; pfam01809 319224012139 ribonuclease P; Reviewed; Region: rnpA; PRK01732 319224012140 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399